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Construction of Genetic Map of Jute (corchorus Olitorius L.) Based on Rapd Markers

Samiul Haque
Bangladesh Jute Research Institute, Sher-e-BanglaNagar, Dhaka

Nadim Ashraf
Department of Biochemistry and Molecular Biology, University of Dhaka

Selina Begum
Bangladesh Jute Research Institute, Sher-e-BanglaNagar, Dhaka

R.H. Sarkar
Department of Botany, University of Dhaka, Dhaka

Haseena Khan
Department of Biochemistry and Molecular Biology, University of Dhaka

Abstract/ Executive Summary:

The first and preliminary genetic linkage map of the jute genome was constructed with RAPD markers using two parents (Variety O-9897 and Accession No. 1805) and their F₂ populations. Linkage analysis at a LOD (Log of odds base 10) score of 3.0 and a maximum distance 50 cM revealed 18 linkage groups. Among the 18 linkage groups, 15 contained single locus and the remaining three groups 16, 17 and 18 contained 2, 11 and 12 loci, respectively. The three multi locus linkage groups varying in length from 15.9 - 241.7 cM, snapped a total length of 463.7 cM with an average marker density of 19.6 cM between adjacent markers. The basic chromosome number of Corchorus spp. is seven (2n = 14), so in saturated map, seven linkage groups should have been obtained to represent the genome. But for linkage group analysis, the effort was very limited and the total number of loci (40) was also low.

Keywords: Jute, Linkage map, RAPD, Polymorphism

Location:

Start Date:

End Date:

Program Area: Knowledge Management

Commodity: Jute

Objectives:

As more markers were located on genetic maps, it became possible to detect a single genetic locus associated with the quantitative trait loci (QTL). Furthermore, the chromosomal location of the QTL was more precisely estimated, and their linkage relationships with other genes could be accurately determined

Methodology:

Two parents (cultivar O-9897 and accession no. 1805) were selected on the basis of low temperature tolerant- and sensitive traits. A cross was made between these two parents where cultivar O-9897 (sensitive) was the seed parent. The F₂ seeds were obtained by selfing F₁. A good number of segregating F₂ individuals (112) were raised by differentiating the low temperature tolerant (16^oC) and sensitive in an Envoron Air Growth Cabinet. Genomic DNA was extracted from young leaves of the parents, sensitive and tolerant F₂ plants following the method modified from Dellaporta et al. (1983) protocol. A total of 114 DNA samples including the two parents, 50 low temperature sensitive- and 62 tolerant F₂s were taken for marker development studies. The DNA was RNase-treated and subsequently quantified on 0.8% agarose gel by comparison with a known concentration of standard lambda (λ) DNA.

Source of Information: Plant Tissue Cult. & Biotech. 18(2): 165-172, 2008 (December)

Article Link (Online Journal):

Funding Source:

Total Budget (Tk.) :

Achievement/Findings:

The unique basic chromosome number of Corchorus spp. is seven (2n=14); so seven linkage groups were expected to represent the genome. But for linkage group analysis, this effort was very limited and the total number of loci (40) was also low. In the software (MapMaker version 3.0), it was indicated that, if the distance between two adjacent loci were more than 50 cM, it would be a split point. More markers are needed to be mapped to merge smaller linkagegroups to larger ones. In this way, the total of 40 loci of the 18 linkage groups may be in a single chromosome i.e. in a single linkage group in the saturated mapping. Due to the unavailability of co-dominant markers for jute, dominant markers (RAPD) were used for mapping. Dominant markers are unable to distinguish heterozygotes from homozygotes; however, they allow many polymorphic markers to be quickly identified, which had been useful for mapping genomes such as legume crops and and for extending the existing linkage map of rye. So, the present effort could be a base map of jute, which could be enriched by using more dominant and co-dominant markers.

Knowledge Management: Journal