Genetic diversity assessment of cucumber landraces using molecular signatures.

IF 3.5 2区 生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY BMC Genomics Pub Date : 2024-11-06 DOI:10.1186/s12864-024-10958-z
Muhammad Sarmad Iftikhar, Hafiza Masooma Naseer Cheema, Asif Ali Khan, Ian Henson DeLacy, Kaye Enid Basford
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Abstract

Genetic profiling of the biodiversity in cultivated crop plants is necessary to preserve important genes and utilize them in a breeding program. Cucumber is used as a model plant to study various characteristics of Cucurbitaceae. Its adaptation to a wide range of climatic conditions suggested analyzing the landraces. The present study was conducted to evaluate the differences, at the genetic level, among landraces spanning five continents. DNA extracted from fifty-six landraces selected from USDA germplasm bank to cover a global representative sample of world cucumber landraces was used for polymerase chain reaction using twenty-eight polymorphic expressed sequence tags simple sequence repeat (EST-SSR) markers. Twenty-eight EST-SSR markers covering all seven chromosomes yielded 98 bands with an average of 3.42 bands per marker. Polymorphic information content ranged from 0.00 (EC35) to 0.74 (EC17) with an average of 0.34. Six clusters provided an appropriate summary of the variation among the landraces, with the two largest groups including 32 (Asiatic) and 17 (European and American) landraces, respectively. Four small groups, three with two members, and one with one member (PI 525155-Egypt) were dissimilar to the two main groups. Landraces from the same region were often clustered together. Genetic similarity of the landraces was revealed by marker banding patterns. The locations of genetic diversity for cucumber landraces can be identified from this study.

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利用分子特征评估黄瓜地方品种的遗传多样性。
要保存重要基因并将其用于育种计划,就必须对栽培作物植物的生物多样性进行遗传分析。黄瓜是研究葫芦科植物各种特性的模式植物。黄瓜对多种气候条件的适应性建议对陆生品系进行分析。本研究旨在评估横跨五大洲的陆生品种在遗传水平上的差异。从美国农业部种质库中选出的五十六个陆地黄瓜品种中提取的 DNA 被用于聚合酶链式反应,使用了二十八个多态表达序列标记简单序列重复(EST-SR)标记。28 个 EST-SSR 标记覆盖了所有 7 条染色体,共产生 98 条带,平均每个标记产生 3.42 条带。多态信息含量从 0.00(EC35)到 0.74(EC17)不等,平均为 0.34。六个群组恰当地概括了陆稻品种间的差异,其中最大的两个群组分别包括 32 个(亚洲)和 17 个(欧洲和美洲)陆稻品种。四个小群(三个有两名成员,一个有一名成员(PI 525155-埃及))与两个大群不同。来自同一地区的陆地品种往往聚在一起。标记带模式揭示了陆地品种的遗传相似性。这项研究可以确定黄瓜陆地品种遗传多样性的位置。
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来源期刊
BMC Genomics
BMC Genomics 生物-生物工程与应用微生物
CiteScore
7.40
自引率
4.50%
发文量
769
审稿时长
6.4 months
期刊介绍: BMC Genomics is an open access, peer-reviewed journal that considers articles on all aspects of genome-scale analysis, functional genomics, and proteomics. BMC Genomics is part of the BMC series which publishes subject-specific journals focused on the needs of individual research communities across all areas of biology and medicine. We offer an efficient, fair and friendly peer review service, and are committed to publishing all sound science, provided that there is some advance in knowledge presented by the work.
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