SSR and RAPID Profile Based Grouping of Selected Jute Germplasm with Respect to Fibre Fineness Trait

Mir, Javid Iqbal; Karmakar, P. G.; Chattopadhyay, Swapan; Chaudhury, S. K.; Ghosh, Subrata; Roy, A.

doi:10.1007/bf03263256

Cited by 18 publications

(14 citation statements)

References 14 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…As a result, molecular markers become indispensable in assessing diversity. Thus, the analysis of the genetic diversity of C. olitorius has been carried out by many researchers [6,7,8] in several African countries. However, no molecular analysis of the diversity of C olitorius accessions has yet been made in Burkina Faso.…”

Section: Introductionmentioning

confidence: 99%

Molecular Characterization of Corchorus olitorius L. of Burkina Faso

Mariam¹,

Sawadogo²,

Kiébré³

et al. 2019

JEAI

View full text Add to dashboard Cite

Corchorus olitorius is more and more cultivated in Burkina Faso because of its socio - economic interest. Hence the objective of this study which will contribute to improve the knowledge of the genetic diversity of the species in Burkina Faso. To this end, seventeen SSR markers were used to characterize ninety-six (96) accessions of the four phytogeographic sectors of Burkina Faso. These accessions consist of 16 accessions of the variety C. olitorius var insicifolius and 80 accessions of the variety C. olitorius var olitorius. The results of the analysis of the diversity of microsatellite markers tested, they were seized sixteen (16) of the seventeen (17) SSRs are polymorphic with a rate of polymorphism of 92.19 % and number of 53 alleles with a mean of three (3) alleles per locus. As for the Shannon diversity index, with an average of 1.05, it is between 0.53 for the HK-27 marker and 1.90 for the HK-19 marker. The polymorphism information content (PIC) potential ranged from 0.11 for the HK-12 marker to 0.49 for the HK-6 marker with an average of 0.32. A structure of diversity into three groups regardless of phytogeographic areas or botanical variety has always been.

show abstract

Section: Introductionmentioning

confidence: 99%

Molecular Characterization of Corchorus olitorius L. of Burkina Faso

Mariam¹,

Sawadogo²,

Kiébré³

et al. 2019

JEAI

View full text Add to dashboard Cite

show abstract

“…, Taposhi Rabeya 3,5 , S. M. Ekramul Hoque 3,5 , Afsana Rahman Snigdha 3,5 , Sarowar Mortoza 3,5 , Syed Abdul Matin 3,5 , Md Kamrul Islam Only Corchorus olitorius and Corchorus capsularis are commercially cultivated, though there are more than 100 Corchorus species 2 in the Malvaceae family. Here we describe highquality draft genomes of these two species and their comparisons at the functional genomics level to support tailor-designed breeding.…”

mentioning

confidence: 99%

“…1), and a combination of useful traits from these species into a single genotype is highly desirable 3 . However, interspecific hybridization is limited because of their cross-incompatibility 4,5 .…”

mentioning

confidence: 99%

Comparative genomics of two jute species and insight into fibre biogenesis

Islam¹,

Saito²,

Emdad³

et al. 2017

Nature Plants

112

View full text Add to dashboard Cite

Jute (Corchorus sp.) is one of the most important sources of natural fibre, covering ∼80% of global bast fibre production1. Only Corchorus olitorius and Corchorus capsularis are commercially cultivated, though there are more than 100 Corchorus species2 in the Malvaceae family. Here we describe high-quality draft genomes of these two species and their comparisons at the functional genomics level to support tailor-designed breeding. The assemblies cover 91.6% and 82.2% of the estimated genome sizes for C. olitorius and C. capsularis, respectively. In total, 37,031 C. olitorius and 30,096 C. capsularis genes are identified, and most of the genes are validated by cDNA and RNA-seq data. Analyses of clustered gene families and gene collinearity show that jute underwent shared whole-genome duplication ∼18.66 million years (Myr) ago prior to speciation. RNA expression analysis from isolated fibre cells reveals the key regulatory and structural genes involved in fibre formation. This work expands our understanding of the molecular basis of fibre formation laying the foundation for the genetic improvement of jute.

show abstract

“…Several molecular markers, such as random markers [26,27], genomic SSRs [7,11,28], and SNPs [10,12] have been reported in jute for use in genetic diversity studies and linkage map construction. Random molecular markers, though easy to generate and use in genetic diversity assessment, are often inefficient in breeding applications owing to low genetic information content and lack of repeatability [29,30].…”

Section: Large-scale Functional Marker Resource Development In Jutementioning

confidence: 99%

Jute eSSR marker and database

Saha¹

2017

Preprint

View full text Add to dashboard Cite

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.

show abstract

SSR and RAPID Profile Based Grouping of Selected Jute Germplasm with Respect to Fibre Fineness Trait

Cited by 18 publications

References 14 publications

Molecular Characterization of Corchorus olitorius L. of Burkina Faso

Molecular Characterization of Corchorus olitorius L. of Burkina Faso

Comparative genomics of two jute species and insight into fibre biogenesis

Jute eSSR marker and database

Contact Info

Product

Resources

About