栽培花生品种间SSR标记多态性及特征分析

doi:10.7668/hbnxb.2015.02.032

摘要/Abstract

摘要： 通过筛选栽培花生间具有多态性的SSR,分析总结多态性SSR的特征,旨在选择性利用SSR标记,推动栽培种花生遗传图谱构建、相关农艺性状的QTL定位和分子标记辅助育种进程。以秦皇岛光秧、石腰豆、印度窄叶、抗019、四粒红和黑花生6个不同植物学类型的中国栽培种花生为材料,选用不同设计类型的1 523个SSR标记筛选品种间多态性SSR,并对其扩增片段长度、重复基序、重复次数等进行分析。结果表明,1 523个标记中,筛选获得43对多态性SSR标记,产生123个多态性标记位点,多态性标记数占2.8%。43对多态性SSR标记中,以ARS× ×的多态性最高,在6个品种中多态率达6.8%。统计各种质间具多态性的SSR,其中石腰豆与四粒红间多态性最高,共筛选到56个多态性标记位点;秦皇岛光秧与印度窄叶间多态率最低,筛选到21个多态性标记位点。在123个多态性SSR标记位点中,80%多态性SSR位点片段长度为150~300 bp;18.8%多态标记的重复基序为GA,其次为AG、TC,分别占12.5%,12.5%;多态标记中二核苷酸、三核苷酸重复基序的重复次数在15次以上的占60%。

关键词: 花生, SSR, 多态性, 特征

Abstract: Through screening polymorphic SSRs and analyzing its characteristic, it is anticipated that the identified set of highly informative markers should be very useful to initiate constructing SSR genetic linkage map, QTL research, and molecular assistant breeding studies in cultivated groundnut.A total of 1 523 markers designed by different methods were used to screen for polymorphism in 6 peanut accessions with different botanical types, and the characteristics of polymorphic SSR were analyzed in the aspect of amplified fragment length, repeat motif, and repeat number.The result showed that only 43(2.8%) pairs of markers with 123 polymorphic loci expressed polymorphism.Among the 43 polymorphic SSRs, ARS× ×showed the highest polymorphic rate(6.8%).For the combination examined, Shiyaodou and Silihong were the highest with polymorphic loci of 56, while Qinhuangdaoguangyang and Yinduzhaiye were the lowest with polymorphic loci of 21.Fragment length of 80% polymorphic loci were between 150 bp and 300 bp;GA motif(18.8%) was the most abundant, followed by AG(12.5%)and TC(12.5%);the repeat number of 60% of di-nucleotide and tri-nucleotide motif was over 15.

Key words: Peanut, SSR, Polymorphism, Characteristic

中图分类号:

S565.03

侯名语, 杨鑫雷, 郭慧敏, 穆国俊, 刘立峰. 栽培花生品种间SSR标记多态性及特征分析[J]. 华北农学报, 2015, 30(2): 183-190. doi: 10.7668/hbnxb.2015.02.032.

HOU Ming-yu, YANG Xin-lei, GUO Hui-min, MU Guo-jun, LIU Li-feng. Identification and Characterization of Polymorphic SSR in Cultivated Peanut[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2015, 30(2): 183-190. doi: 10.7668/hbnxb.2015.02.032.

http://www.hbnxb.net/CN/Y2015/V30/I2/183

参考文献

[1] 孙大容.花生育种学[M].北京:中国农业出版社,1998:21.
[2] Gautami B,Ravi K,Narasu M L,et al.Novel set of groundnut SSR markers for germplasm analysis and interspecific transferability[J].International Journal of Integrative Biology,2009,7(2):100-106.
[3] Guo B Z,Pandey M K,He G H,et al.Recent advances in molecular genetic linkage maps of cultivated peanut[J].Peanut Science,2013,40:95-106.
[4] Moretzsohn M C,Leoi L,Proite K,et al.A microsatellite-based,gene-rich linkage map for the AA genome of Arachis (Fabaceae)[J].Theoretical and Applied Genetics,2005,111(6):1060-1071.
[5] Ravi K,Vadez V,Isobe S,et al.Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut(Arachis hypogaea L.)[J].Theor Appl Genet,2011,122:1119-1132.
[6] Qin H D,Feng S P,Chen C,et al.An integrated genetic linkage map of cultivated peanut (Arachis hypogaea L.) constructed from two RIL populations[J].Theoretical and Applied Genetics,2012,124(4):653-664.
[7] Zhao Y L,Prakash C S,He G H.Characterization and compilation of polymorphic simple sequence repeat (SSR) markers of peanut from public database[J].BMC Research Notes,2012,5:362.
[8] Pandey M K,Gautami B,Jayakumar T A,et al.Highly informative genic and genomic SSR markers to facilitate molecular breeding in cultivated groundnut (Arachis hypogaea L.)[J].Plant Breeding,2012,131(1):139-147.
[9] Boontang S,Tantisuwichwong N,Jogloy S,et al.Simple sequence repeat (SSR)-based genetic variability among peanut genotypes different in specific leaf weight and relative water content[J].African Journal of Biotechnology,2013,12(26):4053-4064.
[10] 崔顺立,刘立峰,陈焕英,等.河北省花生地方品种基于SSR标记的遗传多样性[J].中国农业科学,2009,42(9):3346-3353.
[11] Gautami B,Foncéka D,Pandey M K,et al.An international reference consensus genetic map with 897 marker loci based on 11 mapping populations for tetraploid groundnut (Arachis hypogaea L.)[J].PLoS One,2012,7(7):1-11.
[12] Shirasawa K,Koilkonda P,Aoki K,et al.Sin silico polymorphism analysis for the development of simple sequence repeat and transposon markers and construction of linkage map incultivated peanut[J].BMC Plant Biology,2012,12:80.
[13] Gimenes M A,Hoshino A A,Barbosa A V,et al.Characterization and transferability of microsatellite markers of the cultivated peanut(Arachis hypogaea) [J].BMC Plant Biology,2007,7:9.
[14] Hopkins M S,Casa A M,Wang T,et al.Discovery and characterization of polymorphic simple sequence repeats (SSRs) in peanut[J].Crop Sci,1999,39:1243-1247.
[15] Moretzsohn M C,Hopkins M S,Mitchell S E,et al.Genetic diversity of peanut (Arachis hypogaea L.) and its wild relatives based on the analysis of hypervariable regions of the genome[J].BMC Plant Biology,2004,4:11.
[16] Macedo S E,Moretzsohn M C,Leal-Bertioli S C M,et al.Development and characterization of highly polymorphic long TC repeat microsatellite markers for genetic analysis of peanut[J].BMC Research Notes,2012,5:86.
[17] Moretzsohn M C,Barbosa A V G,Alves-freitas D M T,et al.A linkage map for the B-genome of Arachis (Fabaceae) and its synteny to the A-genome[J].BMC Plant Biology,2009,9:40.
[18] Guo B Z,Chen X P,Hong Y B,et al.Analysis of gene expression profiles in leaf tissues of cultivated peanuts and development of EST-SSR markers and gene discovery[J].Intl J Plant Genomics,2009:1-14.
[19] Cuc L M,Mace E S,Crouch J H,et al.Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated groundnut (Arachis hypogaea L.)[J].BMC Plant Biology,2008,8:55.
[20] He G H,Meng R H,Newman M,et al.Microsatellites as DNA markers in cultivated peanut (Arachis hypogaea L.)[J].BMC Plant Biology,2003,3:3.
[21] Proite K,Leal-Bertioli S C M,Bertioli D J,et al.ESTs from a wild Arachis species for gene discovery and marker development[J].BMC Plant Biology,2007,7:7.
[22] Ferguson M E,Burow M D,Schulze S R,et al.Microsatellite identification and characterization in peanut (A.hypogaea L.)[J].Theoretical and Applied Genetics,2004,108:1064-1070.
[23] Wang C T,Yang X D,Chen D X,et al.Isolation of simple sequence repeats from groundnut[J].Electronic Journal of Biotechnology,2007,10(3):473-480.
[24] 姜慧芳,任小平,张晓杰,等.中国花生小核心种质与ICRISAT微核心种质的SSR遗传多样性比较[J].作物学报,2010,36(7):1084-1091.
[25] 姜慧芳,任小平,张晓杰,等.中国花生小核心种质SSR遗传多样性[J].中国油料作物学报,2010,32(4):472-478.
[26] 姜慧芳,任小平,陈玉宁,等.中国花生地方品种与育成品种的遗传多样性[J].西北植物学报,2011,31(8):1551-1559.
[27] 任小平,张晓杰,廖伯寿,等.ICRISAT花生微核心种质资源SSR标记遗传多样性分析[J].中国农业科学,2010,43(14):2848-2858.
[28] Cho Y G,Ishii T,Temnykh S,et al.Diversity of microsatellites derived from genomic libraries and GenBank sequences in rice (Oryza sativa L.) [J].Theoretical and Applied Genetics,2000,100(5):713-722.
[29] Eujayl I,Sorrells M E,Baum M,et al.Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat[J].Theoretical and Applied Genetics,2002,104(2/3):399-407.
[30] Gupta P K,Rustgi S,Sharma S,et al.Transferable EST-SSR markers for the study of polymorphism and genetic diversity in bread wheat[J].Molecular Genetics and Genomics,2003,270(4):315-323.
[31] Cordeiro G M,Casu R,Mcintyre C L,et al.Microsatellite markers from sugarcane (Saccharum spp.) ESTs cross transferable to erianthus and sorghum[J].Plant Science,2001,160(6):1115-1123.
[32] Song Q J,Marek L F,Shoemaker R C,et al.A new integrated genetic linkage map of the soybean[J].Theoretical and Applied Genetics,2004,109(1):122-128.
[33] Varshney R K,Bertioli D J,Moretzsohn M C,et al.The first SSR-based genetic linkage map for cultivated groundnut (Arachis hypogaea L.) [J].Theoretical and Applied Genetics,2009,118(4):729-739.
[34] Liang X,Chen X,Hong Y,et al.Utility of EST-derived SSR in cultivated peanut(Arachis hypogaea L.)and Arachis wild species[J].BMC Plant Biology,2009:35.
[35] Li Y,Chen C Y,Knapp S J,et al.Characterization of simple sequence repeat (SSR) markers and genetic relationships within cultivated peanut (Arachis hypogaea L.)[J].Peanut Science,2011,38:1-10.
[36] 胡宏霞,穆国俊,侯名语,等.河北省花生地方品种基于EST-SSR的遗传多样性及性状-标记相关分析[J].植物遗传资源学报,2013,14(6):1118-1123,1129.
[37] Mondal S,Hande P,Badigannavar A M.Identification of transposable element markers for a rust (Puccinia arachidis Speg.) resistance gene in cultivated peanut[J].Journal of Phytopathology,2014,162(7-8):548-552.
[38] Wang Z,Weber J,Zhong G,et al.Survey of short tandem DNA repeats[J].Theoretical and Applied Genetics,1994,88:1-6.
[39] Weber J L.Informativeness of human (dC-dA)n (dG-dT)n polymorphisms[J].Genomics,1990,7:524-530.
[40] Thomas M R,Scott N S.Microsatellite repeats in grapevine reveal DNA polymorphisms when analyzed as sequence-tagged sites (STSs)[J].Theoretical and Applied Genetics,1993,86:985-990.
[41] Udupa S M,Robertson L D,Weigand F,et al.Allelic variation at (TAA)n microsatellite loci in a world collection of chickpea (Cicer arietinum L.) germplasm[J].Mol Gen Genet,1999,261:354-363.
[42] Burstin J,Deniot G,Potier J,et al.Microsatellite polymorphism in Pisum sativum[J].Plant Breeding,2001,120(4):311-317.
[43] Love J,Knight A,McAleer M,et al.Towards construction of a high-resolution map of the mouse genome using PCR analyzed microsatellites[J].Nucleic Acids Research,1990,18:4123-4130.
[44] Bell C,Ecker J.Assignment of 30 microsatellite loci to the linkage map of Arabidopsis[J].Genomics,1994,19:137-144.
[45] Yu K,Park S,Poysa V.Abundance and variation of microsatellite DNA sequences in beans (Phaseolus and Vigna)[J].Genome,1999,42:27-34.
[46] Cuc L M,Mace E S,Crouch J H,et al.Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated groundnut (Arachis hypogaea L.)[J].BMC Plant Biology,2008,8:55.
[47] Hong Y B,Chen X P,Liang X Q,et al.A SSR-based composite genetic linkage map for the clutivated peanut(Arachis hypogaea L.)genome[J].BMC Plant Biology,2010,10:17.doi:10.1186/1471-2229-10-17.
[48] 洪彦彬,梁炫强,陈小平,等.花生栽培种SSR遗传图谱的构建[J].作物学报,2009,35(3):395-402.
[49] 张新友,韩锁义,徐静,等.花生主要品质性状的QTLs定位分析[J].中国油料作物学报,2012,34(3):311-315.

选择文件类型/文献管理软件名称

选择包含的内容