A first generation microsatellite- and SNP-based linkage map of jatropha

PLoS ONE

Volumn 6, Issue 8, 2011, Pages

  Wang, Chun Ming ^a   Liu, Peng ^a   Yi, Chengxin ^b   Gu, Keyu ^a   Sun, Fei ^a   Li, Lei ^a   Lo, Loong Chueng ^a,b   Liu, Xiaokun ^a   Feng, Felicia ^a   Lin, Grace ^a   Cao, Suying ^a   Hong, Yan ^a,b   Yin, Zhongchao ^a   Yue, Gen Hua ^a  

^a NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^b Joil Pte Ltd   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS; ARTICLE; BACKCROSSING; CONTROLLED STUDY; EXPRESSED SEQUENCE TAG; GENE MAPPING; GENETIC LINKAGE; JATROPHA; MICROSATELLITE MARKER; NONHUMAN; PLANT GENOME; PROGENY; RICINUS COMMUNIS; SEQUENCE HOMOLOGY; SIMPLE SEQUENCE REPEAT; SINGLE NUCLEOTIDE POLYMORPHISM; SYNTENY; CHROMOSOME MAP; GENETICS; PLANT CHROMOSOME; QUANTITATIVE TRAIT LOCUS;

ARABIDOPSIS; ARABIDOPSIS THALIANA; JATROPHA; JATROPHA CURCAS; RICINUS COMMUNIS;

MICROSATELLITE DNA;

CHROMOSOME MAPPING; CHROMOSOMES, PLANT; EXPRESSED SEQUENCE TAGS; GENETIC LINKAGE; GENOME, PLANT; JATROPHA; MICROSATELLITE REPEATS; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI;

EID: 80052046601     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0023632     Document Type: Article

References (38)

1. Fairless D, (2007) Biofuel: The little shrub that could- maybe. Nature 449: 652-655.
2. Joachim H, (1996) Physic Nut. Jatropha curcas L. Promoting the conservation and use of underutilized and neglected crops Rome International Plant Genetic Resources Institute.
3. Openshaw K, (2000) A review of Jatropha curcas: an oil plant of unfulfilled promise. Biomass Bioenergy 19: 1-15.
4. Carvalho CR, Clarindo WR, Praca MM, Araujo FS, Carels N, (2008) Genome size, base composition and karyotype of Jatropha curcas L., an important biofuel plant. Plant Science 174: 613-617.
5. Shah S, Sharma A, Gupta MN, (2005) Extraction of oil from Jatropha curcas L. seed kernels by combination of ultrasonication and aqueous enzymatic oil extraction. Bioresource Technologies 96: 121-123.
6. Jain S, Sharma MP, (2010) Biodiesel production from Jatropha curcas oil. Renewable & Sustainable Energy Reviews 14: 3140-3147.
7. Zhang Y, Wang Y, Jiang L, Xu Y, Wang Y, et al. (2007) Aquaporin JcPIP2 is involved in drought responses in Jatropha curcas. Acta Biochimica & Biophysica Sinica 39: 787-794.
8. Gu KY, Chiam H, Tian DS, Yin ZC, (2010) Molecular cloning and expression of heteromeric ACCase subunit genes from Jatropha curcas. Plant Science 180: 642-649.
9. Ye J, Qu J, Bui HTN, Chua NH, (2009) Rapid analysis of Jatropha curcas gene functions by virus-induced gene silencing. Plant Biotechnology Journal 7: 964-976.
10. Sato S, Hirakawa H, Isobe S, Fukai E, Watanabe A, et al. (2011) Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L. DNA Research 18: 65-76.
11. Guimarães EP, Ruane J, Scherf BD, Sonnino A, Dargie JD, (2007) Marker-Assisted Selection: Current Status and Future Perspectives, in Crops, Livestock, Forestry and Fish Rome Italy FAO.
12. Meksem K, Kahl G, (2005) The handbook of plant genome mapping: genetic and physical mapping Weinheim Wiley-VCH Verlag GMCH & CO.
13. Harushima Y, Yano M, Shomura A, Sato M, Shimano T, et al. (1998) A high-density rice genetic linkage map with 2275 markers using a single F2 population. Genetics 148: 479-494.
14. Hayashi M, Miyahara A, Sato S, Kato T, Yoshikawa M, et al. (2001) Construction of a genetic linkage map of the model legume Lotus japonicus using an intraspecific F-2 population. DNA Research 8: 301-310.
15. Hwang TY, Sayama T, Takahashi M, Takada Y, Nakamoto Y, et al. (2009) High-density integrated linkage map based on SSR markers in soybean. DNA Research 16: 213-225.
16. Li F, Kitashiba H, Inaba K, Nishio T, (2009) A Brassica rapa linkage map of EST-based SNP markers for identification of candidate genes controlling flowering time and leaf morphological traits. DNA Research 16: 311-323.
17. Ren Y, Zhang Z, Liu J, Staub JE, Han Y, et al. (2009) An integrated genetic and cytogenetic map of the cucumber genome. PloS one 4: e5795.
18. Wang CM, Bai ZY, He XP, Lin G, Xia JH, et al. (2011) A high-resolution linkage map for comparative genome analysis and QTL fine mapping in Asian seabass, Lates calcarifer. BMC Genomics 12: 174.
19. Xia JH, Feng L, Zhu ZY, Fu JJ, Feng JB, et al. (2010) A consensus linkage map of the grass carp (Ctenopharyngodon idella) based on microsatellites and SNPs. BMC Genomics 11: 356.
20. Goldstein DB, Schlotterer C, (1999) Microsatellites: Evolution and Applications Oxford Oxford University Press.
21. Wang WYS, Barratt BJ, Clayton DG, Todd JA, (2005) Genome-wide association studies: theoretical and practical concerns. Nature Reviews Genetics 6: 109-118.
22. Rafalski A, (2002) Applications of single nucleotide polymorphisms in crop genetics. Current Opinion in Plant Biology 5: 94-100.
23. Panjabi P, Jagannath A, Bisht NC, Padmaja KL, Sharma S, et al. (2008) Comparative mapping of Brassica juncea and Arabidopsis thaliana using Intron Polymorphism(IP) markers: homologous relationships, diversification and evolution of the A, B and C Brassica genomes. BMC Genomics 9: 113.
24. Brown JR, (2008) Comparative Genomics: Basic and Applied Research Pennsylvania CRC Press.
25. Yue GH, Chen F, Orban L, (2000) Rapid isolation and characterization of microsatellites from the genome of Asian arowana (Scleropages formosus, Osteoglossidae, Pisces). Molecular Ecology 9: 1007-1009.
26. Green P, Falls K, Crooks S, (1990) Documentation for CRI-MAP, version 2.4 Washington University School of Medicine, St. Louis, MO.
27. Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, et al. (1987) MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1: 174-181.
28. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25: 3389.
29. Wang CM, Zhu ZY, Lo LC, Feng F, Lin G, et al. (2007) A microsatellite linkage map of Barramundi, Lates calcarifer. Genetics 175: 907-915.
30. Xia Z, Tsubokura Y, Hoshi M, Hanawa M, Yano C, et al. (2007) An integrated high-density linkage map of soybean with RFLP, SSR, STS, and AFLP markers using a single F-2 population. DNA Research 14: 257-269.
31. Sato S, Hirakawa H, Isobe S, Fukai E, Watanabe A, et al. (2011) Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L. DNA Research 18: 65-76.
32. Schuster SC, (2008) Next-generation sequencing transforms today's biology. Nature 200.
33. Ganal MW, Altmann T, Roder MS, (2009) SNP identification in crop plants. Current Opinion in Plant Biology 12: 211-217.
34. Sun QBL, Li LF, Wu Y, Ge GJ, (2008) SSR and AFLP Markers Reveal Low Genetic Diversity in the Biofuel Plant in China. Crop Science 48: 1865.
35. Yi CX, Zhang SL, Liu XK, Bui HTN, Hong Y, (2011) Does epigenetic polymorphism contribute to phenotypic variances in Jatropha curcas L.? BMC Plant Biology 10: 259.
36. Dear PH, (1997) Genome mapping: a practical approach Oxford Oxford University Press.
37. Dekkers JCM, Hospital F, (2002) Multifactorial genetics: The use of molecular genetics in the improvement of agricultural populations. Nature Reviews Genetics 3: 22-32.
38. Hu XS, Goodwillie C, Ritland KM, (2004) Joining genetic linkage maps using a joint likelihood function. Theoretical and Applied Genetics 109: 996-1004.