Development of linkage map in F2 population of selected parents with respect to<i>Macrophomina phaseolina</i>resistance trait using screened polymorphic RAPD and developed SCAR markers of jute

Mir, Javid Iqbal; Roy, A.; Ghosh, Swagata; Karmakar, P. G.

doi:10.1080/03235400903308883

Cited by 10 publications

(5 citation statements)

References 20 publications

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“…This framework map is likely to be a good starting point for further genome analyses in jute. All previous mapping efforts in jute could coalesce only 2-3 linkage groups, with a total genetic distance of as low as 87.3 cM [21] and as high as 463.7 [22] to 628.4 cM [23]. Recently, Das et al [24] have mapped 36 microsatellite loci on six linkage groups that covered a total genetic distance of 784.5 cM, with an AMI of 21.8 cM.…”

Section: A Complete Genetic Linkage Map and Qtl Analyses For Bast Fibmentioning

confidence: 99%

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A complete genetic linkage map and QTL analyses for bast fibre quality traits, yield and yield components in jute (Corchorus olitorius L.)

et al. 2013

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Section: A Complete Genetic Linkage Map and Qtl Analyses For Bast Fibmentioning

confidence: 99%

“…However, complete genetic maps of the two cultivated jute species could not be constructed, although elementary maps resolving few linkage groups based on few ISSR or RAPD or microsatellite markers continued to be published over the past several years [21][22][23]. These efforts proved to be more of academic interest than of any practical breeding use.…”

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confidence: 99%

A complete genetic linkage map and QTL analyses for bast fibre quality traits, yield and yield components in jute (Corchorus olitorius L.)

et al. 2013

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“…The results justify optimism for the development of candidate gene-based functional markers, as demonstrated in barley [39] and sugarcane [40]. These markers will serve as a key resource for mapping economically important traits linked to genes using existing mapping populations in jute [9,41].…”

Section: Jute Essrs Linked To Diverse Functionsmentioning

confidence: 89%

Jute eSSR marker and database

Saha¹

2017

Preprint

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Corchorus capsularis (white jute) and C. olitorius (dark jute) are the two principal cultivated species of jute that produce natural bast fiber of commercial importance. We have identified 4509 simple sequence repeat (SSR) loci from 34,163 unigene sequences of C. capsularis to develop a non-redundant set of 2079 flanking primer pairs. Among the SSRs, trinucleotide repeats were most frequent (60%) followed by dinucleotide repeats (37.6%). Annotation of the SSR-containing unigenes revealed their putative functions in various biological and molecular processes, including responses to biotic and abiotic signals. Eighteen expressed gene-derived SSR (eSSR) markers were successfully mapped to the existing single-nucleotide polymorphism (SNP) linkage map of jute, providing additional anchor points. Amplification of 72% of the 74 randomly selected primer pairs was successful in a panel of 24 jute accessions, comprising five and twelve accessions of C. capsularis and C. olitorius, respectively, and seven wild jute species. Forty-three primer pairs produced an average of 2.7 alleles and 58.1% polymorphism in a panel of 24 jute accessions. The mean PIC value was 0.34 but some markers showed PIC values higher than 0.5, suggesting that these markers can efficiently measure genetic diversity and serve for mapping of quantitative trait loci (QTLs) in jute. A primer polymorphism survey with parents of a wide-hybridized population between a cultivated jute and its wild relative revealed their efficacy for interspecific hybrid identification. For ready accessibility of jute eSSR primers, we compiled all information in a user-friendly web database, JuteMarkerdb (http://jutemarkerdb.icar.gov.in/) for the first time in jute. This eSSR resource in jute is expected to be of use in characterization of germplasm, interspecific hybrid and variety identification, and marker-assisted breeding of superior-quality jute.

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“…Molecular markers are a useful tool for effective germplasm management with respect to exploring, monitoring genetic erosion, and removing repeated genotypes from the base populations (Mostafa et al, 2011;Mir et al, 2011). Careful monitoring of genetic diversity and genetic trends throughout our breeding program is an important step in understanding our breeding process, producing improved and genetically diverse cultivars, as well as providing an early warning of the potential narrowing of our experimental germplasm.…”

Section: Discussionmentioning

confidence: 99%

“…Careful monitoring of genetic diversity and genetic trends throughout our breeding program is an important step in understanding our breeding process, producing improved and genetically diverse cultivars, as well as providing an early warning of the potential narrowing of our experimental germplasm. Molecular markers are a useful tool for effective germplasm management with respect to exploring, monitoring genetic erosion, and removing repeated genotypes from the base populations (Mostafa et al, 2011;Mir et al, 2011).…”

Section: Discussionmentioning

confidence: 99%

Using DArT Markers to Monitor Genetic Diversity throughout Selection: A Case Study in Nebraska's Winter Wheat Breeding Nurseries

et al. 2013

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Assessing the genetic relationship among wheat (Triticum aestivum L.) lines in the intermediate generations of a breeding program has important consequences on conserving genetic variability for selection in later generations. The objectives of this study were to (i) determine the breadth of the genetic base of two F3:6 nurseries and (ii) to monitor the effect of selection on the genetic diversity. Two independent F3:6 nurseries (2010 and 2011 seasons) were used; the first nursery contained 276 lines and two local check cultivars genotyped using 1925 polymorphic diversity array technology (DArT) markers while the second nursery contained 278 lines plus the same local check cultivars genotyped using 2236 polymorphic DArT markers. The F3:6 nurseries, 2010 and 2011, were each grouped into three main clusters. Overall, the results suggested that, in both years, the difference among clusters was significant, and the genetic diversity in the F3:6 nurseries exceeded that between the two check cultivars. The results for the two nurseries showed that each cluster in the F3:6 nurseries was represented in the F3:7 and F3:8 with at least one line, except for one cluster in the 2011 nursery which was not represented in F3:8. We concluded that much of the genetic diversity was maintained while advancing lines from F3:6 to F3:7; however, as the selection intensity increases, for example from F3:7 to F3:8, the effect of selection and the importance of monitoring genetic diversity using DNA molecular markers increases.

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Development of linkage map in F2 population of selected parents with respect toMacrophomina phaseolinaresistance trait using screened polymorphic RAPD and developed SCAR markers of jute

Cited by 10 publications

References 20 publications

A complete genetic linkage map and QTL analyses for bast fibre quality traits, yield and yield components in jute (Corchorus olitorius L.)

A complete genetic linkage map and QTL analyses for bast fibre quality traits, yield and yield components in jute (Corchorus olitorius L.)

Jute eSSR marker and database

Using DArT Markers to Monitor Genetic Diversity throughout Selection: A Case Study in Nebraska's Winter Wheat Breeding Nurseries

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