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A First Generation Microsatellite- and SNP-Based Linkage Map of Jatropha

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

Abstract

Jatropha curcas is a potential plant species for biodiesel production. However, its seed yield is too low for profitable production of biodiesel. To improve the productivity, genetic improvement through breeding is essential. A linkage map is an important component in molecular breeding. We established a first-generation linkage map using a mapping panel containing two backcross populations with 93 progeny. We mapped 506 markers (216 microsatellites and 290 SNPs from ESTs) onto 11 linkage groups. The total length of the map was 1440.9 cM with an average marker space of 2.8 cM. Blasting of 222 Jatropha ESTs containing polymorphic SSR or SNP markers against EST-databases revealed that 91.0%, 86.5% and 79.2% of Jatropha ESTs were homologous to counterparts in castor bean, poplar and Arabidopsis respectively. Mapping 192 orthologous markers to the assembled whole genome sequence of Arabidopsis thaliana identified 38 syntenic blocks and revealed that small linkage blocks were well conserved, but often shuffled. The first generation linkage map and the data of comparative mapping could lay a solid foundation for QTL mapping of agronomic traits, marker-assisted breeding and cloning genes responsible for phenotypic variation

Topics: Research Article
Publisher: Public Library of Science
OAI identifier: oai:pubmedcentral.nih.gov:3161998
Provided by: PubMed Central

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Citations

  1. (2009). A Brassica rapa linkage map of ESTbased SNP markers for identification of candidate genes controlling flowering time and leaf morphological traits.
  2. (2010). A consensus linkage map of the grass carp (Ctenopharyngodon idella) based on microsatellites and SNPs.
  3. (2011). A high-resolution linkage map for comparative genome analysis and QTL fine mapping in Asian seabass, Lates calcarifer.
  4. (1998). A highdensity rice genetic linkage map with 2275 markers using a single F2 population.
  5. (2007). A microsatellite linkage map of Barramundi, Lates calcarifer.
  6. (2000). A review of Jatropha curcas: an oil plant of unfulfilled promise.
  7. (2009). An integrated genetic and cytogenetic map of the cucumber genome.
  8. (2007). An integrated high-density linkage map of soybean with RFLP, SSR, STS, and AFLP markers using a single F-2 population.
  9. (2002). Applications of single nucleotide polymorphisms in crop genetics.
  10. (2007). Aquaporin JcPIP2 is involved in drought responses in Jatropha curcas.
  11. (2010). Biodiesel production from Jatropha curcas oil.
  12. (2007). Biofuel: The little shrub that could - maybe.
  13. (2008). Comparative Genomics: Basic and Applied Research.
  14. (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.
  15. (2001). Construction of a genetic linkage map of the model legume Lotus japonicus using an intraspecific F-2 population.
  16. (1990). Documentation for CRI-MAP, version 2.4
  17. (2011). Does epigenetic polymorphism contribute to phenotypic variances in Jatropha curcas L.?
  18. (2005). Extraction of oil from Jatropha curcas L. seed kernels by combination of ultrasonication and aqueous enzymatic oil extraction.
  19. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
  20. (1997). Genome mapping: a practical approach.
  21. (2008). Genome size, base composition and karyotype of Jatropha curcas L., an important biofuel plant.
  22. (2005). Genome-wide association studies: theoretical and practical concerns.
  23. (2009). High-density integrated linkage map based on SSR markers in soybean.
  24. (2004). Joining genetic linkage maps using a joint likelihood function. Theoretical and Applied Genetics 109: 996–1004.
  25. (1987). MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations.
  26. (2007). MarkerAssisted Selection: Current Status and Future Perspectives, in Crops, Livestock, Forestry and Fish.
  27. (1999). Microsatellites: Evolution and Applications.
  28. (2010). Molecular cloning and expression of heteromericACCasesubunitgenesfromJatropha curcas.PlantScience 180:642–649.
  29. (2002). Multifactorial genetics: The use of molecular genetics in the improvement of agricultural populations.
  30. (2008). Next-generation sequencing transforms today’s biology.
  31. (1996). Physic Nut. Jatropha curcas L. Promoting the conservation and use of underutilized and neglected crops.
  32. (2009). Rapid analysis of Jatropha curcas gene functions by virus-induced gene silencing.
  33. (2000). Rapid isolation and characterization of microsatellites from the genome of Asian arowana (Scleropages formosus,
  34. (2011). Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L.
  35. (2009). SNP identification in crop plants.
  36. (2005). The handbook of plant genome mapping: genetic and physical mapping.