CN102533784A

CN102533784A - Chinese cabbage TT16 gene family and application thereof

Info

Publication number: CN102533784A
Application number: CN2012100185028A
Authority: CN
Inventors: 柴友荣; 马丽娟; 闫楠; 雷波; 谌利; 吕俊; 李加纳; 马赑; 周清元
Original assignee: Southwest University
Current assignee: Southwest University
Priority date: 2012-01-19
Filing date: 2012-01-19
Publication date: 2012-07-04

Abstract

The invention discloses a Chinese cabbage TT16 gene family, which comprises a BrTT16-1 gene (overall length cDNA sequence is shown as SEQ IDNo.2), a BrTT16-2 gene (overall length cDNA sequence is shown as SEQ IDNo.4) and a BrTT16-3 gene (overall length cDNA sequence is shown as SEQ IDNo.6). The gene family can be applied to molecule breeding of seed character such as brassica crop seed size growth and testa pigment accumulation.

Description

Chinese cabbage TT16 gene family and application thereof

The application is that application number is 201010281905.2, and the applying date is 2010-09-15, and invention and created name is divided an application for " swede type rape and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family and application thereof ".

Technical field

The present invention relates to gene engineering technology field, particularly swede type rape (Brassica napus) and parent's species Chinese cabbage (Brassica rapa) thereof and wild cabbage (Brassica oleracea) TT16 (TRANSPARENT TESTA 16, transparent kind of skin 16; Claim ABS again, ARABIDOPSIS BSISTER; Or AGL32, AGAMOUS-LIKE 32) gene family and application thereof.

Background technology

The rape of Cruciferae (Brassicaceae) belongs to (Brassica) and comprises a lot of oil crops, vegetables and ornamental plant kind; For the mankind provide nutritive value abundant edible oil, vegetables and ornamental plant; And, has important economic value for livestock industry provides feed.In the rape species, allotrtraploid species swede type rape is redoublingd after through species hybridization by 2 diploid species Chinese cabbages and wild cabbage and is formed.Swede type rape is second-biggest-in-the-world oil crops, extensively plants in the whole world, and cultivated area and output are only second to soybean.Chinese cabbage and wild cabbage also are important oil plant, vegetables and ornamental crops.To provide fundamental basis for the genetic evolution relation that discloses between them to the research of the comparative genomics of swede type rape and parent's species Chinese cabbage and wild cabbage functional gene, and application foundation will be provided for the character improvement of rape genus crop.

The seed color is one of important character of swede type rape.The cabbage type rape yellow seed strain has that kind of skin is thin, the cot rate is low, crude fiber content is low, oleaginousness is high, cake protein content advantages of higher, compares with black seed strain, and the economic worth of grouts all increases with the quality of oil.Though all have the stable natural yellow seed genotype of phenotype in Chinese cabbage and the wild cabbage, there is not natural cabbage type rape yellow seed genotype in occurring in nature.Existing cabbage type rape yellow seed material is mainly created through modes such as distant hybirdization, exists yellow seed rate and yellow seed degree not high, and phenotype is unstable; Be prone to affected by environment and make a variation, seed selection efficient is low, and breeding cycle is long; Shortcomings such as the negative correlation proterties is difficult to overcome can not satisfy production requirement far away.Therefore, the cabbage type rape yellow seed proterties of acquisition genetic stability becomes the important goal of swede type rape breeding.For a long time, the numerous investigators in the whole world have carried out broad research to this proterties, but up to the present still unclear for the molecule mechanism of yellow seed proterties formation, more do not create any report of yellow seed proterties through the transgenic molecular breeding.

The flavonoid material is extensively to be present in botanic secondary metabolites, is the present-color material of anthocyanin pigments such as redness, blueness and purple in the plant tissue.The staple of Arabidopis thaliana plant species skin pigments such as (Arabidopsis thaliana) is that (it is through public phenylpropyl alcohol alkane approach-flavonoid path-pycnogenols approach synthetic to pycnogenols for proanthocyanidin, PA) polymer of monomers.Present research shows that the biosynthetic regulation and control of flavonoid are to be accomplished by the synergy of transcription factor, and the space-time characterisation of these transcription factor expression receives accurate regulation and control.Known WD40, MYB, bHLH, MADS-box, WRKY and bZIP transcription factor have all been participated in the regulation and control of flavonoid path, and wherein MADS-box (TT16), WRKY (TTG2) and the effect of bZIP (TT1) transcription factor in this approach are also thoroughly not clear and definite.Rape belongs to and Arabidopis thaliana belongs to Cruciferae together, has nearer sibship.Arabidopis thaliana TT16 (AtTT16) genes encoding MADS-box transcription factor discovers that it is essential for BAN expression of gene and the accumulation of pycnogenols in inner seed coat.It is yellow seed proterties that Arabidopis thaliana tt16 two mutants shows as transparent kind of skin, and the inner seed coat cell becomes irregular, infer that this gene possibly also participate in inner seed coat cytodifferentiation and growth, but concrete effect and mechanism it be unclear that.Therefore, in rape belongs to, the TT16 gene being carried out homologous clone and Function Identification, is the important channel in screening cabbage type rape yellow seed site.

Rape belongs to and Arabidopis thaliana originates from same ancestors, before 1700～1,800 ten thousand, separates, and the tripling of genomic level has taken place rape family plant; It is that rape belongs to elementary species: Chinese cabbage (AA group; 529Mbp), wild cabbage (CC group, 696Mbp) with black mustard (the BB group, 632Mbp) genome of grade is equivalent to 3 times of arabidopsis gene group (157Mbp) approximately; And swede type rape (AACC group; Genome 1132Mbp) is equivalent to wild cabbage and two genome sums of Chinese cabbage, is equivalent to 6 times of arabidopsis gene group approximately, that is to say; Gene for single copy in Arabidopis thaliana possibly have the copy of 3 correspondences respectively in wild cabbage and Chinese cabbage, and in swede type rape, has 6 copies.At present less to the research report of TT16 gene, and the tissue specificity of the number of members of TT16 gene in rape species such as swede type rape, Chinese cabbage, wild cabbage, protein specificity, evolutionary relationship, expression and all do not appear in the newspapers with the relation of yellow seed proterties etc.

Summary of the invention

In view of this, one of the object of the invention is to provide swede type rape and parent's species Chinese cabbage and wild cabbage TT16 gene family.

For achieving the above object, the present invention adopts terminal rapid amplifying (RACE) technology of cDNA, has cloned swede type rape and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family member's full-length cDNA and corresponding genome sequence respectively, and has carried out systems analysis.The result shows:

Said Chinese cabbage TT16 (BrTT16) gene family comprises following 3 members: BrTT16-1 gene, BrTT16-2 gene and BrTT16-3 gene; The full length cDNA sequence of said BrTT16-1 gene is shown in SEQ ID No.2, and the full length cDNA sequence of BrTT16-2 gene is shown in SEQ ID No.4, and the full length cDNA sequence of BrTT16-3 gene is shown in SEQ ID No.6;

Said wild cabbage TT16 (BoTT16) gene family comprises following 3 members: BoTT16-1 gene, BoTT16-2 gene and BoTT16-3 gene; The full length cDNA sequence of said BoTT16-1 gene is shown in SEQ ID No.8, and the full length cDNA sequence of BoTT16-2 gene is shown in SEQ ID No.10, and the full length cDNA sequence of BoTT16-3 gene is shown in SEQ IDNo.12;

Said swede type rape TT16 (BnTT16) gene family comprises following 6 members: BnTT16-1 gene, BnTT16-2 gene, BnTT16-3 gene, BnTT16-4 gene, BnTT16-5 gene and BnTT16-6 gene; The full length cDNA sequence of said BnTT16-1 gene is shown in SEQ ID No.14; The full length cDNA sequence of BnTT16-2 gene is shown in SEQ IDNo.16; The full length cDNA sequence of BnTT16-3 gene is shown in SEQ ID No.18; The full length cDNA sequence of BnTT16-4 gene is shown in SEQ ID No.20, and the full length cDNA sequence of BnTT16-5 gene is shown in SEQ ID No.22, and the full length cDNA sequence of BnTT16-6 gene is shown in SEQ ID No.24.

Further, the genome sequence of said BrTT16-1 gene is shown in SEQ ID No.1, and the genome sequence of BrTT16-2 gene is shown in SEQ ID No.3, and the genome sequence of BrTT16-3 gene is shown in SEQ ID No.5;

The genome sequence of said BoTT16-1 gene is shown in SEQ ID No.7, and the genome sequence of BoTT16-2 gene is shown in SEQ ID No.9, and the genome sequence of BoTT16-3 gene is shown in SEQ ID No.11;

The genome sequence of said BnTT16-1 gene is shown in SEQ ID No.13; The genome sequence of BnTT16-2 gene is shown in SEQ ID No.15; The genome sequence of BnTT16-3 gene is shown in SEQ ID No.17; The genome sequence of BnTT16-4 gene is shown in SEQ ID No.19, and the genome sequence of BnTT16-5 gene is shown in SEQ ID No.21, and the genome sequence of BnTT16-6 gene is shown in SEQ ID No.23.

12 the TT16 genes and the AtTT16 gene of above-mentioned 3 species have higher homology; The genome sequence consistence is 67.1～70.3%; The coding region sequence consistence is 82.9～87.0%; The consistence of the aminoacid sequence of proteins encoded and similarity are respectively 73.0～78.2% and 78.2～85.7%, and aspects such as the sequence alignment of nucleic acid level and amino acid levels, system's generation cluster show that all they are vertical homologous genes of AtTT16 gene.Also has very high homology between 12 TT16 genes of these 3 species; The genome sequence consistence is 69.4～100.0%; The coding region sequence consistence is 85.2～100.0%, and the consistence of the aminoacid sequence of proteins encoded and similarity are respectively 75.1～100% and 80.4～100%; Wherein, The BnTT16-1 of swede type rape, BnTT16-4, BnTT16-6 gene derive from BrTT16-1, BrTT16-2, the BrTT16-3 gene of Chinese cabbage respectively, and the BnTT16-2 of swede type rape, BnTT16-3, BnTT16-5 gene derive from BoTT16-1, BoTT16-2, the BoTT16-3 gene of wild cabbage respectively.BnTT16, BrTT16, BoTT16 gene family have kept and the similar organ specificity of AtTT16 gene, mainly in reproductive organ, express, and be the highest with flower and the expression of developmental seed, and descend gradually along with the developmental process of seed.In addition; The TT16 gene exists than evident difference at black seed of swede type rape and Chinese cabbage and the expression in the yellow seed material; And in the black seed of wild cabbage and yellow seed material no significant difference; The yellow seed proterties that swede type rape and Chinese cabbage are described is relevant with the TT16 down regulation of gene expression, and the yellow seed proterties of wild cabbage and TT16 gene almost it doesn't matter.

Based on The above results; Utilize any one or more gene or gene truncated segment in BnTT16 of the present invention, BrTT16, the BoTT16 gene family; Can make up TT16 dna recombinant expression carrier and transformant, the justice expression, Antisense Suppression, RNA that is used for the TT16 gene disturbed etc.

Two of the object of the invention is to provide the application in the molecular breeding of rape genus crop seed proterties of said swede type rape and parent's species Chinese cabbage and wild cabbage TT16 gene family thereof.

Further, said swede type rape and parent's species Chinese cabbage thereof and the application of wild cabbage TT16 gene family in the molecular breeding of cabbage type rape yellow seed proterties.

For achieving the above object; It is the RNA interference fragment that the present invention chooses the special conservative section BTT16I (nucleotide sequence is shown in the 353rd～966 bit base among the SEQ ID No.14) of swede type rape and parent's species Chinese cabbage and wild cabbage TT16 gene family thereof; Disturbing carrier is carrier pFGC5941M with the plant RNA of transforming based on pFGC5941 is skeleton; BTT16I inserted between CaMV35S promotor and the OCS terminator of pFGC5941M with antisense and just mode respectively simultaneously form inverted repeats, made up rape and belonged to TT16 gene family rna interference vector pFGC5941M-BTT16I, and transformed in the swede type rape typical black seed kind two No. 10 through the Agrobacterium-mediated Transformation method; The proterties investigation of the positive transfer-gen plant of gained is found; After disturbing reticent BnTT16 gene family through RNA, the background proterties of transfer-gen plant is normal, and transgenic seed obviously diminishes and plants skin pigment and obviously reduce; Majority is tawny and yellowish brown, with the typical black seed formation sharp contrast of non-transgenic seed.Explanation is in plants such as swede type rape; The TT16 gene is regulated and control the formation of proterties such as seed size is grown, the accumulation of kind skin pigment simultaneously; Can be applied to molecular breeding, the especially molecular breeding of cabbage type rape yellow seed proterties that rape belongs to the crop seed proterties, be beneficial to and create novel cabbage type rape yellow seed material; The size that is used to increase seed after also can overexpression improves thousand grain weigth.

Beneficial effect of the present invention is: the invention provides the number of members of TT16 gene in swede type rape and parent's species Chinese cabbage and wild cabbage, each member's full length cDNA sequence and genome sequence, proteins encoded characteristic, evolutionary relationship, tissue specificity of expression etc.; And confirmed that the TT16 gene family participates in the growth of seed size simultaneously and plant the accumulation of skin pigment; The invention provides the TT16 gene thus and belong to the particularly application in the molecular breeding of cabbage type rape yellow seed proterties of crop seed character improvement rape, application prospect is good.

Description of drawings

In order to make the object of the invention, technical scheme and advantage clearer, will combine accompanying drawing that the present invention is made further detailed description below, wherein:

Fig. 1 is BnTT16 (A), BrTT16 (B), the terminal amplification of BoTT16 (C) gene family 5 ' cDNA.

Fig. 2 is BnTT16 (A), BrTT16 (B), the terminal amplification of BoTT16 (C) gene family 3 ' cDNA.

Fig. 3 is the amplification of BnTT16 (A), BrTT16 (B), BoTT16 (C) gene family member full-length cDNA, wherein 1 adopts combination of primers FBT16-1+RBT16-2, and 2 adopt combination of primers FBT16-3+RBT16-4, and 3 adopt combination of primers FBT16-5+RBT16-6.

Fig. 4 is the amplification of BnTT16 (A), BrTT16 (B), BoTT16 (C) gene family member genomic dna, wherein 1 adopts combination of primers FBT16-1+RBT16-2, and 2 adopt combination of primers FBT16-3+RBT16-4, and 3 adopt combination of primers FBT16-5+RBT16-6.

Fig. 5 is the sequence alignment of BrTT16, BoTT16, BnTT16 gene family member and AtTT16 gene mRNA.

Fig. 6 is the proteic aminoacid sequence comparison of BrTT16, BoTT16, BnTT16 family protein and AtTT16.

Fig. 7 is the cluster analysis of BrTT16, BoTT16, BnTT16 gene family member and AtTT16 gene mRNA.

Fig. 8 is BrTT16, BoTT16, BnTT16 family protein and the proteic cluster analysis of AtTT16.

Fig. 9 is that BrTT16, BoTT16, BnTT16 gene family member's Southern hybridization identifies that wherein M is the molecular weight standard of digoxigenin labeled.

Figure 10 is BrTT16, BoTT16, the BnTT16 gene family is overall and member's organ specificity detection of expression.

Figure 11 is the overall and member's of TT16 gene family in the black seed of Chinese cabbage, wild cabbage, swede type rape, the yellow seed material Main Reproductive Organs expression.

Figure 12 is the pcr amplification of RNA interference fragment BTT16I.

Figure 13 is the structure iron of rna interference vector pFGC5941M-BTT16I.

Figure 14 cuts with PCR for the enzyme in the rna interference vector pFGC5941M-BTT16I structure and identifies that wherein A is Swa I+AatII double digestion pMD19-T-BTT16I, and M is DNA marker, the pMD19-T-BTT16I before on behalf of enzyme, CK cut; B is Swa I+Aat II double digestion pFGC5941M, and M is DNA marker, the pFGC5941M before on behalf of enzyme, CK cut; C is that clone's daughter bacteria liquid PCR of pFGC5941M-BTT16IA detects; D is BamH I+Xba I double digestion pMD19-T-BTT16I, and M is DNA marker, the pMD19-T-BTT16I before on behalf of enzyme, CK cut; E is BamH I+Xba I double digestion pFGC5941M-BTT16IA; M is DNA marker, the pFGC5941M-BTT16IA before on behalf of enzyme, CK cut; F is that clone's daughter bacteria liquid PCR of pFGC5941M-BTT16I detects, and M is DNAmarker.

Figure 15 is that the Basta of regeneration plant rechecks evaluation, and wherein CK is the non-transgenic plant, and 1-3 is a regeneration plant.

Figure 16 is the PCR detected result of regeneration plant, and wherein M is DNA marker, the positive contrast of CK, and 1 negative contrast, 2-15 is a regeneration plant.

Figure 17 is the comparison of transgenic seed (left side) and non-transgenic seed (right side).

Embodiment

Below will carry out detailed description to the preferred embodiments of the present invention with reference to accompanying drawing.The experimental technique of unreceipted actual conditions in the preferred embodiment, usually according to normal condition, the molecular cloning experiment guide (third edition for example; J. work such as Sa nurse Brooker, Huang Peitang etc. translate, Science Press; 2002) described in condition, or the condition of advising according to manufacturer.

The vegetable material that preferred embodiment adopts: the Chinese cabbage material all comes from turnip type rape subspecies (B.rapa ssp.oleifera), comprises that black seed is that 09L597 and yellow seed are 09L600; The wild cabbage material all comes from kale mutation (B.oleracea var.acephala), comprises that black seed is that 09L598 and yellow seed are 09L599; Brassica napus comprises that black seed is 5B and seed look near isogenic line (black seed is that 09L588, yellow seed are 09L587), by Chongqing City's rape Engineering Technical Research Centre seed selection and land for growing field crops general planting, and has passed through the above simple inflorescence bagging selfing of 10 generations; In the black seed kind of swede type rape two No. 10 by the seed selection of cole crop institute of the Chinese Academy of Agricultural Sciences, seed is provided by Chongqing City's rape Engineering Technical Research Centre.

The reagent that preferred embodiment adopts: [5U/ μ l attaches 10 * PCR Buffer and (contains Mg the Easy-Taq archaeal dna polymerase ²⁺)] available from the Beijing Quanshijin Biotechnology Co., Ltd; [5U/ μ l attaches 10 * LA PCR Buffer II and (contains Mg LA Taq archaeal dna polymerase ²⁺)], λ-HindIII DNA marker etc. is available from precious biotechnology (Dalian) ltd; The DNA marker of restriction enzyme DraI, EcoRI, EcoRV, HindIII, nylon membrane, digoxigenin labeled etc. are available from Lithuania MBI Fermentas company; The pMD19-T carrier is available from precious biotechnology (Dalian) ltd; MS (Murashige and Skoog medium) substratum is available from Dutch Duchefa company; Gelling gum is available from Zhejiang Zhongken Biotechnology Co., Ltd., and other molecule, biochemistry and plant tissue culture reagent are sowed rich garden supplies ltd available from Shanghai Sangon Biological Engineering Technology And Service Co., Ltd and Shanghai; The modified version plant RNA disturbs carrier is carrier pFGC5941M on the basis of pFGC5941, to improve to form; Improvements are to adopt BnPAP2 gene the 2nd intron (BnPAP2I2) the replacement pFGC5941 from swede type rape to go up long PhChsA transcribed spacer, and between transcribed spacer and promotor, increase an AatII point of contact.

The test kit that preferred embodiment adopts: plant tissue RNA extraction agent box (W7021) is available from Shanghai China Shun biotechnology ltd in a small amount; Glue recovery test kit and plasmid extraction test kit are available from Omego company in a small amount; The pMD19-T carrier connects test kit available from precious biotechnology (Dalian) ltd; GeneRacer Kit is available from American I nvitrogen company; All available from German Roche company, RNA PCR Kit (AMV) Ver.3.0 is available from precious biotechnology (Dalian) ltd for PCR DIGProbe Synthesis Kit, DIG Easy Hyb, DIG Wash and Block Buffer Set, DIG Nucleic AcidDetection Kit.

One, the clone of swede type rape and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family

1, the extraction of swede type rape, Chinese cabbage and wild cabbage genome DNA

Get the tender leaf of the swede type rape 5B, Chinese cabbage 09L597 and the wild cabbage 09L598 that cultivate under the normal condition of land for growing field crops; Adopt CTAB (CTAB) method to extract genome DNA, adopt electrophoretic method and spectrophotometry to estimate the quality and the concentration of nucleic acid samples.1.0% agarose gel electrophoresis result shows; The genome DNA good in integrity of 3 species that extract; Molecular-weight average is all greater than the 23kb band of λ-HindIII DNA Marker; RNA digestion is more complete, and it is higher to detect purity through spectrophotometry, can directly be used for pcr amplification and Southern hybridization.

2, the extraction of the total RNA of each organ of swede type rape, Chinese cabbage and wild cabbage

Get the swede type rape 5B, Chinese cabbage 09L597 and the wild cabbage 09L598 that cultivate under the normal condition of land for growing field crops flower bud (Bu), [swede type rape and wild cabbage take away the seed of spending back 15 days (15D), 30 days (30D), 45 days (45D) and 55 days (55D) to the seed of flower (Fl) and 4 etap; Chinese cabbage takes away the seed of spending back 10 days (10D), 25 days (25D), 40 days (40D) and 45 days (45D)]; And the root (Ro) of the swede type rape 09L587 that cultivates under the normal condition of land for growing field crops and 09L588, Chinese cabbage 09L597 and 09L600, wild cabbage 09L598 and 09L599, hypocotyl (Hy), cotyledon (Co), stem (St), leaf (Le), flower bud, flower, pod skin (SP) and the seed of 4 etap (swede type rape and wild cabbage are got the seed of 15D, 30D, 45D and 55D; Chinese cabbage is got the seed of 10D, 25D, 40D and 45D) totally 12 organs; Adopt the total RNA of the total RNA extraction agent of plant box each organ of extraction in a small amount, adopt electrophoretic method and spectrophotometry to estimate the quality and the concentration of nucleic acid samples.1.0% agarose gel electrophoresis result shows that total RNA characteristic band of acquisition is clear, and does not have obvious RNA degraded and DNA pollution, and it is higher to detect purity through spectrophotometry, can satisfy the basic demand of RACE operation.

3, the acquisition of swede type rape, Chinese cabbage and the wild cabbage RACE first chain cDNA

The total RNA that gets flower bud, flower and the seed of 4 etap of swede type rape 5B, Chinese cabbage 09L597 and wild cabbage 09L598 respectively is mixed into the RNA sample that total amount is 5 μ g; Adopt GeneRacer Kit to carry out a series of RACE operation by its specification sheets; Final reverse transcription obtains to hold grappling simultaneously that the first chain cDNA of manual splice sequence is arranged at 3 ' end and 5 ', carries out 1.0% agarose gel electrophoresis after PCR amplifies and detects, and the result shows; The first chain cDNA of three species demonstrates the traction of size at 200bp～10kb; The center of gravity zone is at 500bp～4kb, and most crucial district explains that reverse transcription is more complete about 1.5kb; Obtained total cDNA of better quality, it is terminal to can be used for cloning the complete cDNA of swede type rape, Chinese cabbage and wild cabbage TT16 gene family.

4, the terminal clone of swede type rape, Chinese cabbage and wild cabbage TT16 gene family 5 ' cDNA

According to the right result of AtTT16 gene order multiple ratio, reverse primer RTT16-50 corresponding to two points the most conservative (5 '-ggatcgttttgaagattaggctgagcaag-3 ') and RBT16RT (5 '-gctcgtgtggaggaatggagg-3 ') have been designed.Be template with Chinese cabbage, wild cabbage, the swede type rape first chain cDNA respectively, primer 5 ' P that provides with GeneRacer Kit (5 '-cgactggagcac-gaggacactga-3 ') and RTT16-50 pairing carry out the terminal RACE of 5 ' cDNA one and expand.50 μ l standard Taq pcr amplification systems are: 10 * PCR Buffer, 5.0 μ l; The MgCl2 3.0 μ l of 25mmol/L, the dNTPs1.0 μ l of 10mmol/L, the forward primer 1.0 μ l of 10 μ mol/L; The reverse primer 1.0 μ l of 10 μ mol/L; The Taq enzyme 0.5 μ l of 5U/ μ l, template 0.5 μ l, adding distilled water to TV is 50 μ l.The pcr amplification loop parameter is: 94 ℃ of preparatory sex change 2 minutes; 94 ℃ of sex change are 1 minute again, 52 ℃ of annealing 1 minute, and 72 ℃ were extended totally 30 circulations 1 minute; Last 72 ℃ were extended 10 minutes.

With the thing of expanding production is template; Primer 5 ' NP that provides with GeneRacer Kit (5 '-ggacactgacatggactga-aggagta-3 ') and RBT16RT pairing; Carrying out the terminal RACE nest of 5 ' cDNA expands; Pcr amplification system and one expands identical but template changes 0.1 μ l into, and the pcr amplification loop parameter is: 94 ℃ of preparatory sex change 2 minutes; 94 ℃ of sex change are 1 minute again, 58 ℃ of annealing 1 minute, and 72 ℃ were extended totally 25 circulations 1 minute; Last 72 ℃ were extended 10 minutes.The PCR product carries out 1.0% agarose gel electrophoresis and detects (Fig. 1); Adopt glue recovery test kit recovery target fragment in a small amount, be connected with the pMD19-T carrier, again transformed into escherichia coli DH5a competent cell; It is clear to be cultured to blue hickie with the LB flat board that contains penbritin (Amp), IPTG and X-gal; Picking hickie list bacterium colony after increasing bacterium and cultivate with the LB liquid nutrient medium that contains Amp, is got bacterium liquid and is carried out PCR and detect; The positive colony sublist reveals tangible length polymorphism as a result, respectively selects 10 representative positive colony and entrusts the English Weihe River, Shanghai Jie Ji Bioisystech Co., Ltd to check order.Sequencing result shows: 5 ' cDNA end of BrTT16 gene family is between 429～681bp, and 5 ' cDNA end of BoTT16 gene family is between 448～658bp, and 5 ' cDNA end of BnTT16 gene family is between 526～649bp.NCBI BLASTn shows that these 5 ' cDNA are terminal to have very high consistence with AtTT16/ABS mRNA (AJ318098), shows that they belong to 5 ' the cDNA end of TT16 gene family really for rape.

5, the terminal clone of swede type rape, Chinese cabbage and wild cabbage TT16 gene family 3 ' cDNA

According to the right result of AtTT16 gene order multiple ratio, forward primer FTT16-30 (5 '-tgagctctct (g/a) ttctctg (c/t) gatgc-3 ') and FTT16-3N corresponding to two points the most conservative (5 '-ctcacatcggtctcatcgtcttctc-3 ') have been designed.Be template with Chinese cabbage, wild cabbage, the swede type rape first chain cDNA respectively, primer 3 ' P that provides with GeneRacer Kit (5 '-gctgtcaacga-tacgctacgtaacg-3 ') and FTT16-30 pairing carry out the terminal RACE of 3 ' cDNA one and expand.The pcr amplification system expands identical with the amplification cycles parameter with the terminal RACE one of 5 ' cDNA.

With the thing of expanding production is template; Primer 3 ' N P that provides with GeneRacer Kit (5 '-cgctacgtaacggcatgacagtg-3 ') and FTT16-3N pairing; Carry out the terminal RACE nest of 3 ' cDNA and expand, the pcr amplification system expands identical with the amplification cycles parameter with the terminal RACE nest of 5 ' cDNA.PCR product such as preceding method be said carries out electrophoresis detection (Fig. 2), glue recovery, pMD19-T carrier cloning, transformed into escherichia coli competent cell, the screening of positive colony, bacterium liquid PCR identifies and order-checking.Sequencing result shows: 3 ' cDNA end of BrTT16 gene family is between 778～853bp; 3 ' cDNA end of BoTT16 gene family is between 733～936bp, and 3 ' cDNA end of BnTT16 gene family [does not all comprise poly (A)] between 687～820bp.NCBI BLASTn shows that these 3 ' cDNA are terminal to have very high consistence with AtTT16/ABS mRNA gene, shows that they belong to 3 ' the cDNA end of TT16 gene family really for rape.

6, swede type rape, Chinese cabbage and wild cabbage TT16 gene family member Full Length cDNA Cloning

According to the terminal sequencing result of BrTT16, BoTT16, BnTT16 gene family 5 ' and 3 ' cDNA; Design 3 forward primers and 3 reverse primers (table 1), obtained 3 couples of combination of primers: FBT16-1+RBT16-2, FBT16-3+RBT16-4, FBT16-5+RBT16-6; Be template with Chinese cabbage, wild cabbage, the swede type rape first chain cDNA respectively; Adopt above-mentioned combination of primers and 50 μ l standard Taq pcr amplification systems; Amplification BnTT16, BrTT16, each member's of BoTT16 gene family full-length cDNA, the pcr amplification loop parameter is: 94 ℃ of preparatory sex change 2 minutes, 1 minute, 54～57 ℃ annealing of 94 ℃ of sex change were extended 2 minutes for 1 minute, 72 ℃ again; Totally 35 circulations, last 72 ℃ were extended 10 minutes; Preceding for another example method is said carries out electrophoresis detection (Fig. 3), glue recovery, pMD19-T carrier cloning, transformed into escherichia coli competent cell, the screening of positive colony, bacterium liquid PCR identifies and order-checking.

The amplimer of table 1 BrTT16, BoTT16, BnTT16 gene family member full-length cDNA

The result: total cDNA is a template with Chinese cabbage first chain; Combination of primers is respectively FBNA10-6+RBRA10-10, FBT16-3+RBT16-4, FBT16-5+RBT16-6; Each amplification obtains the full-length cDNA that 1 length is respectively 1060bp, 1242bp, 1123bp, respectively called after BrTT16-1mRNA, BrTT16-2mRNA and BrTT16-3mRNA.

Total cDNA is a template with wild cabbage first chain; Combination of primers is respectively FBNA10-6+RBRA10-10, FBT16-3+RBT16-4, FBT16-5+RBT16-6; Each amplification obtains the full-length cDNA that 1 length is respectively 1087bp, 1028bp, 1134bp, respectively called after BoTT16-1mRNA, BoTT16-2mRNA and BoTT16-3mRNA.

Total cDNA is a template with swede type rape first chain, and combination of primers is FBT16-1+RBT16-2, and amplification obtains the full-length cDNA that 2 length are respectively 1060bp and 1084bp, respectively called after BnTT16-1mRNA and BnTT16-2mRNA; Combination of primers is FBT16-3+RBT16-4, and amplification obtains the full-length cDNA that 2 length are respectively 1214bp and 1243bp, respectively called after BnTT16-3mRNA and BnTT16-4mRNA; Combination of primers is FBT16-5+RBT16-6, and amplification obtains the full-length cDNA that 2 length are respectively 1128bp and 1123bp, respectively called after BnTT16-5mRNA and BnTT16-6mRNA.

Vector NTI Advance 9.0 multiple ratios are to showing, the full-length cDNA of the BnTT16 of gained, BrTT16, BoTT16 gene family all has the terminal clone of corresponding RACE subsequence corresponding with it, but explains that they all are genes of transcriptional expression.Multiple ratio is to also showing, terminal each the indicated separate gene of RACE has all obtained corresponding full-length cDNA in 3 species.

7, the clone of swede type rape, Chinese cabbage and wild cabbage TT16 gene family member genomic dna

According to the multiple comparison result of sequence of BrTT16, BoTT16, BnTT16 gene family member full-length cDNA, design detects each member's special primer combination: FBT16-1S+RBT16-12S, FBT16-2S+RBT16-12S, FBT16-34S+RBT16-3S, FBT16-34S+RBT16-4S, FBT16-56S+RBT16-5S, FBT16-56S+RBT16-6S (table 2); According to BrTT16, BoTT16, BnTT16 gene family RACE end and Full Length cDNA Cloning result; Genome DNA with Chinese cabbage 09L597, wild cabbage 09L598, swede type rape 5B is a template respectively; Adopt the amplimer combination of above-mentioned full-length cDNA to carry out identical PCR with 50 μ l standard Taq pcr amplification systems; Amplification BnTT16, BrTT16, each member's of BoTT16 gene family genomic dna; Said electrophoresis detection (Fig. 4), glue recovery, pMD19-T carrier cloning, transformed into escherichia coli competent cell, the screening of positive colony, bacterium liquid PCR evaluation and the special primer of carrying out of preceding for another example method identified (with above-mentioned special primer combination carrying out grads PCR), order-checking at last.

Table 2 detects BrTT16, BoTT16, BnTT16 gene family member's special primer

The result: with the Chinese cabbage genome DNA is template; Amplimer is combined as FBT16-1+RBT16-2, and special primer is combined as FBT16-1S+RBT16-12S, the genomic dna that to obtain 1 length be 2615bp; Its exon district and BrTT16-1cDNA are in full accord, called after BrTT16-1gene; Amplimer is combined as FBT16-3+RBT16-4, and special primer is combined as FBT16-34S+RBT16-4S, the genomic dna that to obtain 1 length be 2730bp, and its exon district and BrTT16-2cDNA are in full accord, called after BrTT16-2gene; Amplimer is combined as FBT16-5+RBT16-6, and special primer is combined as FBT16-56S+RBT16-6S, the genomic dna that to obtain 1 length be 2674bp, and its exon district and BrTT16-3cDNA are in full accord, called after BrTT16-3gene.

With the wild cabbage genome DNA is template; Amplimer is combined as FBT16-1+RBT16-2, and special primer is combined as FBT16-2S+RBT16-12S, the genomic dna that to obtain 1 length be 2625bp; Its exon district and BoTT16-1cDNA are in full accord, called after BoTT16-1gene; Amplimer is combined as FBT16-3+RBT16-4, and special primer is combined as FBT16-34S+RBT16-3S, the genomic dna that to obtain 1 length be 2632bp, and its exon district and BoTT16-2cDNA are in full accord, called after BoTT16-2gene; Amplimer is combined as FBT16-5+RBT16-6, and special primer is combined as FBT16-56S+RBT16-5S, the genomic dna that to obtain 1 length be 2763bp, and its exon district and BoTT16-3cDNA are in full accord, called after BoTT16-3gene.

With the swede type rape genome DNA is template; Amplimer is combined as FBT16-1+RBT16-2; The special primer combination is respectively FBT16-1S+RBT16-12S and FBT16-2S+RBT16-12S; Obtain the genomic dna that 2 length are respectively 2616bp and 2622bp, its exon district is in full accord with BnTT16-1cDNA and BnTT16-2cDNA respectively, called after BnTT16-1gene and BnTT16-2gene; Amplimer is combined as FBT16-3+RBT16-4; The special primer combination is respectively FBT16-34S+RBT16-3S and FBT16-34S+RBT16-4S; Obtain the genomic dna that 2 length are respectively 2632bp and 2729bp; Its exon district is in full accord with BnTT16-3cDNA and BnTT16-4cDNA respectively, called after BnTT16-3gene and BnTT16-4gene; Amplimer is combined as FBT16-5+RBT16-6; The special primer combination is respectively FBT16-56S+RBT16-5S and FBT16-56S+RBT16-6S; Obtain the genomic dna that 2 length are respectively 2707bp and 2678bp; Its exon district is in full accord with BnTT16-5cDNA and BnTT16-6cDNA respectively, called after BnTT16-5gene and BnTT16-6gene.

Two, the analysis of swede type rape and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family

On Vector NTI Advance 9.0 softwares, carry out sequence alignment, ORFs (ORF) is searched and is translated; On http://www.ncbi.nlm.nih.gov website, carry out the CDD search of BLAST and protein sequence; Provide in websites such as http://bip.weizmann.ac.il/ and http://www.expasy.org on the information biology on-line analysis software of link and carry out structural analysis of protein, on websites such as http://prodes.toulouse.inra.fr/multalin/multalin.html and http://www.ebi.ac.uk/clustalw/, carry out gene and protein sequence multiple ratio to and cluster analysis.

1, the nucleic acid sequence analysis of swede type rape, Chinese cabbage and wild cabbage TT16 gene family

BrTT16, BoTT16, BnTT16 gene family member's genomic dna basic parameter is as shown in table 3, and the full-length cDNA basic parameter is as shown in table 4, and G+C content is as shown in table 5.

The basic parameter of table 3BnTT16, BrTT16, BoTT16 gene family member genomic dna

The basic parameter of table 4BnTT16, BrTT16, BoTT16 gene family member full-length cDNA

The G+C content (%) of table 5BnTT16, BrTT16, BoTT16 gene

Can know by table 3～5; BrTT16, BoTT16,12 members' of BnTT16 gene family genomic dna is formed by 6 introns and 7 exons; The length of 6 introns is respectively between 99～298bp, 818～922bp, 70～118bp, 102～108bp, 83～103bp and 77～100bp, all intron montage borders all standard compliant " GT...AG " rule.12 member ORF are between 723～738bp, and G+C content is between 44.4～50.0%, apparently higher than non-coding region.12 members have abundant transcription initiation site polymorphum and the 1st intron mutability montage, cause each member's 5 ' UTR length and sequence difference bigger, and length is between 121～321bp, and G+C content is between 36.4～44.8%.Because the polymorphum in tailing site, each member's 3 ' UTR length also exists difference, and between 189～206bp, G+C content is between 30.3～32.8%.Among 12 members; All there are typical tailing signal AAATAAA in BnTT16-3, BnTT16-4 and BrTT16-2 gene; BnTT16-1 and BoTT16-1 gene are not found typical tailing signal, and other member has then found a possible atypia tailing signal AATGAATGAATGAA.

NCBI BLASTn analysis revealed; BnTT16, BrTT16, BoTT16 gene family and Arabidopis thaliana AtTT16/ABSmRNA (AJ318098) have highest homology property; Explain that 12 members of BnTT16, BrTT16, BoTT16 gene family that the clone obtains are the vertical homologous gene of AtTT16, the TT16 gene member in the same species constitutes horizontal homologous gene.

Comparison result is shown in table 6 and table 7 in twos for the nucleotide sequence of BnTT16, BrTT16, BoTT16 gene family member and AtTT16 gene, and the multiple comparison result of mRNA is as shown in Figure 5, and the cluster analysis of mRNA is as shown in Figure 7.

The genome sequence comparison of table 6BnTT16, BrTT16, BoTT16 gene family member and AtTT16 gene

The coding region sequence comparison of table 7BnTT16, BrTT16, BoTT16 gene family member and AtTT16 gene

Can be known to have higher homology between 12 TT16 genes of 3 species by table 6～7, the consistence of genome sequence is 69.4～100.0%, and the consistence of coding region sequence is 85.2～100.0%; They and AtTT16 gene also have very high homology, and the consistence of genome sequence is 67.1～70.3%, and the consistence of coding region sequence is 82.9～87.0%.BrTT16-1 and BnTT16-1 genomic level consistence are 99.8%, and the coding region consistence is 100.0%; BrTT16-2 and BnTT16-4 genomic level consistence are 99.7%, and the coding region consistence is 99.9%; BrTT16-3 and BnTT16-6 genomic level consistence are 99.9%, and the coding region consistence is 100.0%.BoTT16-1 and BnTT16-2 genomic level consistence are 99.7%, and the coding region consistence is 99.6%; BoTT16-2 and BnTT16-3 genomic level consistence are 100.0%, and the coding region consistence is 100%; BoTT16-3 and BnTT16-5 genomic level consistence are 97.4%, and the coding region consistence is 99.2%.Explain that BnTT16-1, BnTT16-4, the BnTT16-6 gene of swede type rape derive from the BrTT16-1 of Chinese cabbage, BrTT16-2, BrTT16-3 gene respectively; And BnTT16-2, BnTT16-3, BnTT16-5 gene derive from BoTT16-1, BoTT16-2, the BoTT16-3 gene of wild cabbage respectively; Swede type rape is the allotrtraploid species of Chinese cabbage and wild cabbage, has the summation of Chinese cabbage and wild cabbage TT16 gene.Characteristic variation base (Fig. 5) and phylogenetic relationship (Fig. 7) from gene order are also supported above conclusion.

2, the proteins encoded analysis of swede type rape, Chinese cabbage and wild cabbage TT16 gene family

The basic parameter of BrTT16, BoTT16, BnTT16 family protein is as shown in table 8.

The basic parameter of table 8BrTT16, BoTT16, BnTT16 family protein

Can be known that by table 8 BrTT16, BoTT16,12 albumen sizes of BnTT16 family are between 240～256aa, molecular weight is between 28.11～30.41kDa, and iso-electric point is between 6.44～7.89; Main member is similar with AtTT16, be slightly acidic albumen, but BnTT16-4, BrTT16-2 and BoTT16-2 is basic protein, and each protein sequence Semi-polarity amino acid proportion is the highest, secondly is hydrophobic amino acid.

The proteic aminoacid sequence comparison result of BnTT16, BrTT16, BoTT16 family protein and AtTT16 is shown in table 9 and table 10, and multiple comparison result is as shown in Figure 6.

The consistence (%) of table 9BrTT16, BoTT16, BnTT16 family protein and AtTT16 protein sequence

The similarity (%) of table 10BrTT16, BoTT16, BnTT16 family protein and AtTT16 protein sequence

Can know to have very high homology between 12 TT16 albumen of 3 species by table 9～10 with Fig. 6, consistence is 75.1～100%, and similarity is 80.4～100%; They and AtTT16 also have very high homology, and consistence is 73.0～78.2%, and similarity is 78.2～85.7%.Simultaneously,, the homology of protein level has the evolution corresponding relation between still can clearly finding out 6 albumen and BoTT16, the BrTT16 family protein of BnTT16 family.

BrTT16, BoTT16, BnTT16 family protein and the proteic cluster analysis of AtTT16 are as shown in Figure 8, and BnTT16-1 and BrTT16-1 at first meet, and BnTT16-2 and BoTT16-1 at first meet, then these 4 to gather be one group; BnTT16-3 and BrTT16-2 at first meet, and BnTT16-4 and BoTT16-2 at first meet, then these 4 to gather be one group; BnTT16-5 and BrTT16-3 at first meet, and BnTT16-6 and BoTT16-3 at first meet, then these 4 to gather be one group.Proved that once more rape belongs to the evolutionary relationship of 3 species TT16 genes.

Software prediction BrTT16, BoTT16,12 albumen of BnTT16 family do not have signal peptide, N-glycosylation site and transbilayer helix.NetPhos 2.0 predictions show a plurality of phosphorylation sites of their ubiquities; BnTT16-1, BnTT16-2, BrTT16-1 and BrTT16-1 respectively have 11; BnTT16-5, BnTT16-6, BrTT16-3 and BoTT16-3 respectively have 9; BnTT16-4 and BrTT16-2 respectively have 6, and BnTT16-3 and BoTT16-2 respectively have 5, and phosphorylation possibly participated in their protein-active and regulated.The WoLFPSORT prediction shows that these 12 albumen all are positioned can combine with DNA in the nucleus.The PredictNLS prediction shows; BnTT16-1 and BrTT16-1 respectively have a nuclear localization signal RKVRERKKELLQQQL-GNLSRKKR; BnTT16-1 and BoTT16-1 respectively have a nuclear localization signal RKKELLQQQLGNLSRKRRM; BoTT16-2 has two nuclear localization signal KKKRR and SRKRRM, and other member respectively has a nuclear localization signal SRKRRM.The SOPMA prediction shows that 12 proteic secondary structure main bodys of TT16 also have certain extended chain for curling and the α spiral at random, do not contain βZhuan Jiao, and big alpha-helix mainly concentrates on proteic middle part, and each member's secondary structure is similar.SWISS-MODEL and ESyPred3D fail to dope 12 proteic tertiary structures of TT16.

3, the number of members of swede type rape, Chinese cabbage and wild cabbage TT16 gene family detects

Adopting restriction enzyme DraI, EcoRI, EcoRV and HindIII enzyme to cut the black seed of Chinese cabbage respectively is that the black seed of 09L597, kale is that the black seed of 09L598, swede type rape is the genome DNA of 5B; Carry out 0.8% agarose gel electrophoresis, alkaline denaturation and neutralization then, DNA is transferred on the positively charged nylon membrane with capillary tube technique.Adopt the 305bp fragment of combination of primers FTT16-32 and RTT16-50 amplification BoTT16-3mRNA coding region 3 ' end, and employing PCR DIG ProbeSynthesis Kit with digoxin on the target fragment mark (digoxigenin, DIG)-dUTP is as hybridization probe; The PCR loop parameter of probe mark is: 94 ℃ of preparatory sex change 2 minutes, and 1 minute, 52 ℃ annealing of 94 ℃ of sex change were extended 1 minute for 1 minute, 72 ℃ again, totally 35 circulations, last 72 ℃ were extended 10 minutes.Adopt this probe 43 ℃ of Southern hybridization (DIG Easy Hyb) of respectively above-mentioned 3 species gene group DNA being carried out 16 hours; Carry out immunodetection (DIG Washand Block Buffer Set and DIG Nucleic Acid Detection Kit) after the rigorous washing, and hybridization colour developing band is taken pictures.

The Southern results of hybridization is as shown in Figure 9; The swede type rape genomic dna has not produced 4,5,6,6 hybridization bands through DraI, EcoRI, EcoRV, the cutting of HindIII enzyme; Chinese cabbage and wild cabbage genomic dna have produced 3,4,4,3 hybridization bands respectively through DraI, EcoRI, EcoRV, HindIII; With the gene number of members basically identical that the actual clone in front obtains, can confirm basically that swede type rape, Chinese cabbage, wild cabbage TT16 gene family number of members are respectively 6,3,3.

4, the tissue and organ specificity detection of expression of swede type rape, Chinese cabbage and wild cabbage TT16 gene family

Getting the black seed of Chinese cabbage respectively is that the black seed of 09L597, wild cabbage is total RNA that the black seed of 09L598, swede type rape is each 12 organ of 5B, adopts sxemiquantitative RT-PCR to detect BrTT16, BoTT16, BnTT16 gene family overall expression and each member's the tissue expression specificity in the different tissues organ.Adopt forward primer FBT16RT (5 '-gatgctcacatcggtctcatcg-3 ') and reverse primer RBT16RT (5 '-gctcgtgtggaggaatggagg-3 ') detection BrTT16, BoTT16, the overall expression of BnTT16 gene family in 12 organs.Adopt special primer combination FBT16-1S+RBT16-12S; FBT16-34S+RBT16-4S; FBT16-56S+RBT16-6S; FBT16-1S+RBT16-12S; FBT16-2S+RBT16-12S; FBT16-34S+RBT16-3S; FBT16-56S+RBT16-5S; FBT16-2S+RBT16-12S; FBT16-34S+RBT16-3S; FBT16-34S+RBT16-4S; FBT16-56S+RBT16-5S; FBT16-56S+RBT16-6S detects BrTT16-1 respectively; BrTT16-2; BrTT16-3; BoTT16-1; BoTT16-2; BoTT16-3; BnTT16-1; BnTT16-2; BnTT16-3; BnTT16-4; BnTT16-5; The expression of BnTT16-6 gene in 12 organs.Adopt 50 μ l standard Taq pcr amplification systems; The amplification cycles parameter is: 94 ℃ of preparatory sex change 2 minutes; 1 minute, 62～68 ℃ (selecting according to primer) annealing of 94 ℃ of sex change were extended 1 minute for 1 minute, 72 ℃ again, totally 35 circulations, and last 72 ℃ were extended 10 minutes.

Detected result is shown in figure 10; Internal standard gene 26S rRNA through 20 round-robin PCR in 12 organs of Chinese cabbage, wild cabbage, the black seed material of swede type rape, all amplified brightness more consistent band; Initial total RNA amount, reverse transcription efficient, PCR efficient etc. that each organ is described are more consistent, and it is believable that the tissue and organ specificity that carries out is on this basis expressed comparative result.Secondly totally being expressed in flower and spending in back 10 days seeds the byest force of BrTT16 gene family be to spend back 25 days, 40 days seeds and flower bud; Each member's expression characteristic is similar with totally, at flower with spend and express the byest force in back 10 days seeds, reduces gradually along with the seed development process, in root, hypocotyl, cotyledon, stem, leaf and pod skin, does not express or has only faint expression; In 3 members, BrTT16-1 expression of gene abundance is the highest, at flower bud, flower, spend predominant expression in back 10 days, 25 days seeds, in hypocotyl, cotyledon, stem, leaf and pod skin, weak expression is arranged also, in root, does not have and expresses; The organ specificity of BrTT16-3 gene is similar with BrTT16-1, and it is lower slightly just to express abundance; The expression abundance of BrTT16-2 gene in reproductive organ is similar with BrTT16-3 with BrTT16-1, but the expression in other organ is very weak or nothing.The BoTT16 gene family totally all has expression in the main histoorgan of wild cabbage; But abundance is different; Spend back 15 days seeds the highest, flower, spend back 30 days, 45 days seeds, pod skin, flower buds, spend back 55 days seeds to take second place, also have weak in leaf, hypocotyl, cotyledon, stem, the root or trace is expressed; Each member's expression characteristic is similar with totally, but the organ specificity of BoTT16-1 gene is the strongest, only in reproductive organ, expresses, especially predominant expression in spending back 15 days seeds; BoTT16-2 and BoTT16-3 gene are also mainly expressed in reproductive organ, but in vegetative organ, the expression of weak or trace are arranged also.The BnTT16 gene family totally be expressed in flower and spend in back 15 days seeds the strongest, secondly be spend back 30 days, 45 days, spend back 55 days seeds, flower bud, in hypocotyl, cotyledon, stem, leaf, pod skin, root, also have weak or utmost point weak expression; Each member's organ specificity is similar with totally, promptly mainly in reproductive organ, expresses, and in developmental seed, expresses the highlyest, and reduces gradually along with the seed development process; But also variant between each member, on expression level, BnTT16-2 and BnTT16-4 gene are the highest, are followed successively by BnTT16-5, BnTT16-6, BnTT16-3, BnTT16-1 gene then; On organ specificity, BnTT16-5 is the poorest, except in the seed of growing, the predominant expression, certain expression being arranged also in other major organs; BnTT16-1 is the most special, only in the seed of spending and spending back 15 days, 30 days, 45 days, expression is arranged; All the other members are placed in the middle, except that having BnTT16-1 expression of gene characteristic, majority also flower bud, spend in back 55 days seeds even the pod skin certain expression arranged.To sum up; Rape belongs to the TT16 gene family and has kept and the similar organ specificity of Arabidopis thaliana TT16 gene; Promptly mainly in reproductive organ, express; The highest to express in flower and the developmental seed, and the decline gradually along with the developmental process of seed, the function that inner seed coat cell development and the accumulation of kind skin pigment are regulated in this and their participations of prediction is consistent.But, no matter be rape belong to and Arabidopis thaliana between, rape plant in belonging between or kind in horizontal homologous gene between, all there is certain disproportionation in the organ specificity of TT16.

5, swede type rape, Chinese cabbage and wild cabbage TT16 gene family are in the differential expression property detection of black seed, yellow seed storeroom

Getting the black seed of Chinese cabbage respectively is that 09L597 and yellow seed are that the black seed of 09L600, wild cabbage is that 09L598 and yellow seed are that the black seed of 09L599, swede type rape seed look near isogenic line is that 09L588 and yellow seed are total RNA of 09L587 Main Reproductive Organs, and employing sxemiquantitative RT-PCR detects BrTT16, BoTT16, the BnTT16 gene family is overall and the expression of each member in the different tissues organ.Primer and amplification cycles parameter are the same.

Detected result is shown in figure 11; The organ specificity of BrTT16 gene family in the yellow seed material of Chinese cabbage is similar with black seed material; But BrTT16-1 and BrTT16-3 gene are obviously reduced than black seed material on the expression level, and the BrTT16-2 gene is slightly higher than black seed material.The organ specificity of BoTT16 gene family in the yellow seed material of wild cabbage is similar with black seed material, and expression level does not have notable difference yet.The organ specificity of BnTT16 gene family in the cabbage type rape yellow seed material is similar with black seed material; But BnTT16-1, BnTT16-2, BnTT16-5 and BnTT16-6 gene are obviously than black seed material downward modulation, BnTT16-3 and BnTT16-4 gene and black seed material no significant difference on the expression level.The above results explanation, the yellow seed proterties of swede type rape and Chinese cabbage should be relevant with the TT16 down regulation of gene expression, and the yellow seed proterties of wild cabbage and TT16 almost it doesn't matter; In addition, different TT16 gene family member to participate in the degree of yellow seed proterties also different.

Three, the application of swede type rape and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family

1, rape belongs to the structure of TT16 gene family rna interference vector

It is right that BrTT16, BoTT16, BnTT16 gene family and each member's of Arabidopis thaliana MADS gene superfamily mRNA is carried out multiple ratio, and selecting BrTT16, BoTT16, the special conservative section of BnTT16 gene family is that RNA disturbs target.With the swede type rape 5B first chain cDNA is template; Adopt combination of primers FBTT16I+RBTT16I cloning RNA interference fragment BTT16I (nucleotide sequence is shown in the 353rd～966 bit base among the SEQ ID No.14), and add that at its 5 ' end BamHI and AatII restriction enzyme site, 3 ' end add XbaI and SwaI restriction enzyme site; Employing standard 50 μ l Taq pcr amplification system (template 0.5 μ l; Taq archaeal dna polymerase 1.5U), the amplification cycles parameter is: 94 ℃ of preparatory sex change 2 minutes, and 1 minute, 58 ℃ annealing of 94 ℃ of sex change were extended 1 minute for 1 minute, 72 ℃ again; Totally 30 circulations, last 72 ℃ were extended 10 minutes; PCR product such as preceding method be said carries out electrophoresis detection (Figure 12), glue recovery, pMD19-T carrier cloning, transformed into escherichia coli competent cell, the screening of positive colony, bacterium liquid PCR identifies and order-checking, recombinant vectors pMD19-T-BTT16I.

Go out antisense fragment BTT16IA with SwaI and AatII double digestion from pMD19-T-BTT16I; PFGC5941M carrier with open loop behind same double digestion is connected (being about to the antisense fragment is inserted between the CaMV35S promotor and transcribed spacer of pFGC5941M) again; Connect product and transform DH5 α competent cell, cultivate picking list bacterium colony with the LB plate screening of the kantlex (Kan) that contains 100mg/L; After using the LB liquid nutrient medium that contains Kan to increase the bacterium cultivation; Get bacterium liquid and carry out composite PCR detection (combination of primers is F35S3N+FBTT16I and RBTT16I+RBnPAP2I2, and sequence is seen table 11, and detected result is seen Figure 14); Choose full male clone and extract plasmid, get intermediate carrier pFGC5941M-BTT16IA.

Table 11TT16 gene family rna interference vector makes up and transgenic detects the primer

Go out just fragment BTT16IS with BamHI and XbaI double digestion from pMD19-T-BTT16I; Be connected with pFGC5941M-BTT16IA again (be about to transcribed spacer and OCS terminator that just fragment is inserted into intermediate carrier between) through open loop behind the same double digestion; Connect product and transform DH5 α competent cell, cultivate picking list bacterium colony with the LB plate screening that contains 100mg/L Kan; After increasing the bacterium cultivation; Get bacterium liquid and carry out composite PCR detection (combination of primers is F35S3N+RBnPAP2I2, FBnPAP2I2+ROCST5N, and sequence is seen table 11, and detected result is seen Figure 14); Choose full male clone and extract plasmid, get rna interference vector pFGC5941M-BTT16I (structure is seen Figure 13).

2, rna interference vector transforms agrobacterium tumefaciens

Adopt liquid nitrogen cold shock method to transform the agrobacterium tumefaciens lba4404 competent cell pFGC5941M-BTT16I; Coat on the YEB flat board that contains 75mg/L Kan, 40mg/L Rifampin (Rif) and 20mg/L Streptomycin sulphate (Str), be inverted for 28 ℃ and cultivated picking resistance bacterium colony 2 days; Be inoculated in to contain in the aforementioned identical antibiotic YEB liquid nutrient medium and cultivate; Get bacterium liquid and carry out composite PCR and detect, the correct bacterium liquid of detected result in-80 ℃ of preservations, promptly gets the Agrobacterium engineering strain with glycerine.

3, rna interference vector transforms black seed swede type rape

Frozen Agrobacterium engineering strain thawed be cultured to logarithmic phase after the activation; 5000rpm collected thalline in centrifugal 10 minutes; [MS+1.0mg/L 2 with the MSm liquid nutrient medium; The 4-dichlorophenoxyacetic acid (2,4-D)+1.0mg/L 6-benzylaminopurine (6-BA)+100 μ M Syringylethanone (AS), pH5.8] regulate bacterial concentration to OD ₆₀₀About 0.3, supply to contaminate and use.Choose in the black seed kind of full swede type rape two No. 10 seed, soaked 1～2 hour, use 95% alcohol immersion 1 minute again with clear water; Aseptic water washing 3 times; Soaked 15 minutes with 0.1% mercuric chloride solution, aseptic water washing is clean, is inoculated in the MS solid medium again; 25 ℃ of illumination cultivation 7 days, the hypocotyl that cuts aseptic seedling is as genetically modified explant; With hypocotyl segment, (MS+1.0mg/L 6-BA+1.0mg/L 2,4-D cultivated 3 days in pH5.8) in advance to insert in advance the training substratum; Hypocotyl after cultivating is in advance immersed in the aforementioned Agrobacterium engineering bacteria liquid of getting ready and contaminated 10 minutes, inhales with aseptic thieving paper and removes unnecessary bacterium liquid, insert again train altogether substratum (MS+1.0mg/L 6-BA+50 μ M AS, pH5.8) in 23 ℃ of dark cultivations 2 days; Hypocotyl after cultivating is altogether immersed the washing sterilization 30 minutes of vibrating in the MSk liquid nutrient medium [MS+1.0mg/L 2,4-D+1.0mg/L 6-BA+500mg/L cephamycin (Cef)], repeats secondary, blots surface-moisture with aseptic thieving paper; Insert the middle illumination cultivation of callus induction substratum [MS+1.0mg/L 2,4-D+1.0mg/L 6-BA+500mg/L Cef+10mg/L grass fourth phosphine (Basta), pH5.8] again more than 14 days, to growing macroscopic kanamycin-resistant callus tissue; Insert division culture medium [MS+4.0mg/L 6-BA+2.0mg/L zein (ZT)+5.0mg/LAgNO again ₃+ 500mg/L Cef+10mg/L Basta, pH5.8] middle continuation cultivation, the callus induction differentiation; Insert again the stem division culture medium (MS+3.0mg/L 6-BA+2.0mg/L ZT+500mg/L Cef+10mg/L Basta, pH5.8) in illumination cultivation to growing little stem; Insert again the long shoot substratum (MS+0.005mg/L 6-BA+500mg/L Cef+10mg/L Basta, pH5.8) in illumination cultivation to growing stem and blade; Insert again root media (MS+0.5mg/L indolylacetic acid+500mg/L Cef, pH5.8) in illumination cultivation to growing flourishing root system; Seedling after taking root is transplanted in the basin alms bowl that contains sterilization perlite-vermiculite-turfy soil (mass ratio is 1: 1: 1) mixture after domestication, manages by greenhouse pot culture, finally obtains 14 strain regeneration plants.

4, the evaluation of transfer-gen plant

(1) Basta of transfer-gen plant rechecks and identifies

On the leaflet tablet of regrowth, drip the 1 Basta solution that concentration is 50mg/L, observing blade after 3 days has no change.The result is shown in figure 15, reacts not obvious or has only the plant of faint variation maybe positive plant, maybe negative plant and drip that the zone that Basta solution is arranged becomes withered and yellow even downright bad plant occurs.

(2) PCR of transfer-gen plant identifies

Adopt the CTAB method to extract the genome DNA of regeneration plant; Be template with this total DNA again; Adopt combination of primers F35S3N+FBTT16I and FPbarT+RPbarT to carry out pcr amplification respectively; Whether detect pFGC5941M-BTT16I successfully is incorporated in the genome of deceiving the seed swede type rape, to contain the positive contrast of Agrobacterium engineering bacteria liquid of pFGC5941M-BTT16I, with the negative contrast of non-transgenic plant.The result is shown in figure 16, in the partial regeneration plant, amplifies the band consistent with positive control, in two kinds of combination of primers detect, is the male plant and possibly is transfer-gen plant.Recheck the result relatively with Basta, in Basta rechecks, show as the plant of resistance, its PCR detects great majority and also presents the positive.The result of comprehensive several respects has at least 7 strains can confirm as the male transfer-gen plant in the 14 strain regeneration plants.

5, the investigation of transfer-gen plant proterties

In the process that transfer-gen plant grows, morphological specificitys such as the growing way of transfer-gen plant and non-transgenic plant, plant type, flower, flower bud, leaf, pod have been carried out comparative observation, the result finds; Both and no significant difference; Growing way basically identical, plant type do not have considerable change yet, and pattern is aureus; Blade is blunt sharp type; It is also normal to bear pods, explain disturb the BnTT16 gene family silence make in the black seed swede type rape through RNA after, comprise that the background proterties of growing does not basically obviously change.Simultaneously, transgenic seed and non-transgenic seed are compared.The result is shown in figure 17; Transgenic seed is compared with the non-transgenic seed 2 tangible proterties variations has been taken place: the one, and the kind skin pigment of transgenic seed obviously reduces; The seed outward appearance is tawny and yellowish brown, has formed sharp contrast with the typical black kind skin of non-transgenic seed; The 2nd, transgenic seed obviously diminishes, and the thousand seed weight of non-transgenic seed is 4.64g, and transgenic suppresses that the thousand grain weigth of the most fierce plant is 2.23g, has descended 51.94%.The above results shows that brassica plant TT16 gene families such as swede type rape participate in the accumulation of kind of skin pigment and the growth of seed size simultaneously.Explanation simultaneously, disturb the BnTT16 gene family silence make in the black seed swede type rape through RNA after, can reach and suppress kind of the effect of skin pigment accumulation, help createing novel cabbage type rape yellow seed material.

Need to prove; Swede type rape according to the invention and parent's species Chinese cabbage thereof and wild cabbage TT16 gene family; Except above-mentioned employing RNA perturbation technique is applied to the molecular breeding of swede type rape seed properties; The down-regulated expression that also can adopt other technology endogenous TT16 gene of mediation such as Antisense Suppression or gene family is to reduce kind of a skin pigment accumulation; Also can carry out accumulation even the increase seed size of overexpression, also can be applied to the molecular breeding of other rape genus crop seed proterties except that swede type rape through just transgenic to increase pycnogenols.Even adopt the RNA perturbation technique, in preferred embodiment, the used pFGC5941M carrier, also can adopt other carrier to make up rna interference vector; The gained rna interference vector also can adopt other method to carry out Plant Transformation except the improvement Ye Panfa that adopts the agrobacterium tumefaciens lba4404 mediation transforms.And; In preferred embodiment 12 of disclosed swede type rape and parent's species Chinese cabbage (coming from the turnip type rape subspecies) thereof and wild cabbage (coming from the kale mutation) TT16 gene family the member; According to research method and the result of study that preferred embodiment provided; Other TT16 allelotrope sequence that comes from swede type rape, Chinese cabbage and wild cabbage; The TT16 gene order that perhaps comes from other subspecies, the ecotype or the kind of these 3 species; Perhaps the gene order with above-mentioned 6 members is having at least 98% conforming any nucleotide sequence more than the 80bp continuously, can be applied to realize purposes according to the invention or effect in the molecular breeding of rape genus crop seed proterties.

Explanation is at last; Above embodiment is only unrestricted in order to technical scheme of the present invention to be described; Although through invention has been described with reference to the preferred embodiments of the present invention; But those of ordinary skill in the art should be appreciated that and can make various changes to it in form with on the details, and the spirit and scope of the present invention that do not depart from appended claims and limited.

Claims

1. Chinese cabbage TT16 gene family is characterized in that: comprise following 3 members: BrTT16-1 gene, BrTT16-2 gene and BrTT16-3 gene; The full length cDNA sequence of said BrTT16-1 gene is shown in SEQ ID No.2, and the full length cDNA sequence of BrTT16-2 gene is shown in SEQ ID No.4, and the full length cDNA sequence of BrTT16-3 gene is shown in SEQID No.6.

2. Chinese cabbage TT16 gene family according to claim 1; It is characterized in that: the genome sequence of said BrTT16-1 gene is shown in SEQ ID No.1; The genome sequence of BrTT16-2 gene is shown in SEQ ID No.3, and the genome sequence of BrTT16-3 gene is shown in SEQ ID No.5.

3. claim 1 or the 2 described Chinese cabbage TT16 gene families application in the molecular breeding of rape genus crop seed proterties, said seed properties are that seed size is grown and the accumulation of kind skin pigment.

4. application according to claim 3 is characterized in that: the molecular breeding that said rape belongs to the crop seed proterties is the molecular breeding of cabbage type rape yellow seed proterties.