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dc.contributor.authorTao, Aifen
dc.contributor.authorHuang, Long
dc.contributor.authorWu, Guifen
dc.contributor.authorKeshavarz-Afshar, Reza
dc.contributor.authorQi, Jianmin
dc.contributor.authorXu, Jiantang
dc.contributor.authorFang, Pingping
dc.contributor.authorLin, Lihui
dc.contributor.authorZhang, Liwu
dc.contributor.authorLin, Peiqing
dc.date.accessioned2017-08-26T23:37:10Z
dc.date.available2017-08-26T23:37:10Z
dc.date.issued2017-05
dc.identifier.citationTao, Aifen, Long Huang, Guifen Wu, Reza Keshavarz Afshar, Jianmin Qi, Jiantang Xu, Pingping Fang, Lihui Lin, Liwu Zhang, and Peiqing Lin. "High-density genetic map construction and QTLs identification for plant height in white jute (Corchorus capsularis L.) using specific locus amplified fragment (SLAF) sequencing." BMC Genomics 18, no. 1 (May 2017): 355. DOI: 10.1186/s12864-017-3712-8.en_US
dc.identifier.issn1471-2164
dc.identifier.urihttps://scholarworks.montana.edu/xmlui/handle/1/13587
dc.description.abstractBACKGROUND Genetic mapping and quantitative trait locus (QTL) detection are powerful methodologies in plant improvement and breeding. White jute (Corchorus capsularis L.) is an important industrial raw material fiber crop because of its elite characteristics. However, construction of a high-density genetic map and identification of QTLs has been limited in white jute due to a lack of sufficient molecular markers. The specific locus amplified fragment sequencing (SLAF-seq) strategy combines locus-specific amplification and high-throughput sequencing to carry out de novo single nuclear polymorphism (SNP) discovery and large-scale genotyping. In this study, SLAF-seq was employed to obtain sufficient markers to construct a high-density genetic map for white jute. Moreover, with the development of abundant markers, genetic dissection of fiber yield traits such as plant height was also possible. Here, we present QTLs associated with plant height that were identified using our newly constructed genetic linkage groups. RESULTS An F8 population consisting of 100 lines was developed. In total, 69,446 high-quality SLAFs were detected of which 5,074 SLAFs were polymorphic; 913 polymorphic markers were used for the construction of a genetic map. The average coverage for each SLAF marker was 43-fold in the parents, and 9.8-fold in each F8 individual. A linkage map was constructed that contained 913 SLAFs on 11 linkage groups (LGs) covering 1621.4 cM with an average density of 1.61 cM per locus. Among the 11 LGs, LG1 was the largest with 210 markers, a length of 406.34 cM, and an average distance of 1.93 cM between adjacent markers. LG11 was the smallest with only 25 markers, a length of 29.66 cM, and an average distance of 1.19 cM between adjacent markers. \'SNP_only\' markers accounted for 85.54% and were the predominant markers on the map. QTL mapping based on the F8 phenotypes detected 11 plant height QTLs including one major effect QTL across two cultivation locations, with each QTL accounting for 4.14-15.63% of the phenotypic variance. CONCLUSIONS To our knowledge, the linkage map constructed here is the densest one available to date for white jute. This analysis also identified the first QTL in white jute. The results will provide an important platform for gene/QTL mapping, sequence assembly, genome comparisons, and marker-assisted selection breeding for white jute.en_US
dc.description.sponsorshipNational Natural Science Foundation of China (31471549, 31000734); National Agri-Industry Technology Research System for Crops of Bast and Leaf Fiber, China (CARS-19-E06)en_US
dc.rightsCC-BY 4.0en_US
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/legalcodeen_US
dc.titleHigh-density genetic map construction and QTLs identification for plant height in white jute (Corchorus capsularis L.) using specific locus amplified fragment (SLAF) sequencingen_US
dc.typeArticleen_US
mus.citation.extentfirstpage355en_US
mus.citation.journaltitleBMC Genomicsen_US
mus.citation.volume18en_US
mus.identifier.categoryLife Sciences & Earth Sciencesen_US
mus.identifier.doi10.1186/s12864-017-3712-8en_US
mus.relation.collegeCollege of Agricultureen_US
mus.relation.departmentResearch Centers.en_US
mus.relation.universityMontana State University - Bozemanen_US
mus.relation.researchgroupEastern Ag Research Center.en_US
mus.data.thumbpage4en_US


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