title: Development of SSR markers and construction of a linkage map in jute.
abstract: Jute is an important natural fibre crop, which is only second to cotton in its importance at the global level. It is mostly grown in Indian subcontinent and has been recently used for the development of genomics resources.We recently initiated a programme to develop simple sequence repeat markers and reported a set of 2469 SSR that were developed using four SSR-enriched libraries (Mir et al. 2009). In this communication, we report an additional set of 607 novel SSR in 393 SSR containing sequences. However, primers could be designed for only 417 potentially useful SSR. Polymorphism survey was carried out for 374 primer pairs using two parental genotypes (JRO 524 and PPO4) of a mapping population developed for fibre fineness; only 66 SSR were polymorphic. Owing to a low level of polymorphism between the parental genotypes and a high degree of segregation distortion in recombinant inbred lines, genotypic data of only 53 polymorphic SSR on the mapping population consisting of 120 RIL could be used for the construction of a linkage map; 36 SSR loci were mapped on six linkage groups that covered a total genetic distance of 784.3 cM. Hopefully, this map will be enriched with more SSR loci in future and will prove useful for identification of quantitative trait loci/genes for molecular breeding involving improvement of fibre fineness and other related traits in jute.
authors.affiliation: Molecular Biology Laboratory, Department of Genetics, Ch. Charan Singh University, Meerut 250 004, India.
authors.forename: Moumita
authors.initials: M
authors.lastname: Das
authors.forename: Sumana
authors.initials: S
authors.lastname: Banerjee
authors.forename: Raman
authors.initials: R
authors.lastname: Dhariwal
authors.forename: Shailendra
authors.initials: S
authors.lastname: Vyas
authors.forename: Reyazul R
authors.initials: RR
authors.lastname: Mir
authors.forename: Niladri
authors.initials: N
authors.lastname: Topdar
authors.forename: Avijit
authors.initials: A
authors.lastname: Kundu
authors.forename: Jitendra P
authors.initials: JP
authors.lastname: Khurana
authors.forename: Akhilesh K
authors.initials: AK
authors.lastname: Tyagi
authors.forename: Debabrata
authors.initials: D
authors.lastname: Sarkar
authors.forename: Mohit K
authors.initials: MK
authors.lastname: Sinha
authors.forename: Harindra S
authors.initials: HS
authors.lastname: Balyan
authors.forename: Pushpendra K
authors.initials: PK
authors.lastname: Gupta
mesh_terms: D000483:Alleles; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D032381:Corchorus / Q000235:genetics*; D017931:DNA Primers / Q000378:metabolism; D018744:DNA, Plant / Q000235:genetics; D020224:Expressed Sequence Tags; D015723:Gene Library; D005819:Genetic Markers; D018745:Genome, Plant / Q000235:genetics; D018895:Microsatellite Repeats / Q000235:genetics*; D059372:Nucleotide Motifs / Q000235:genetics; D011110:Polymorphism, Genetic
chemical_list: D017931:DNA Primers; D018744:DNA, Plant; D005819:Genetic Markers