دورية أكاديمية
Genome Survey Sequencing of Luffa Cylindrica L. and Microsatellite High Resolution Melting (SSR-HRM) Analysis for Genetic Relationship of Luffa Genotypes
العنوان: | Genome Survey Sequencing of Luffa Cylindrica L. and Microsatellite High Resolution Melting (SSR-HRM) Analysis for Genetic Relationship of Luffa Genotypes |
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المؤلفون: | Jianyu An, Mengqi Yin, Qin Zhang, Dongting Gong, Xiaowen Jia, Yajing Guan, Jin Hu |
المصدر: | International Journal of Molecular Sciences, Vol 18, Iss 9, p 1942 (2017) |
بيانات النشر: | MDPI AG, 2017. |
سنة النشر: | 2017 |
المجموعة: | LCC:Biology (General) LCC:Chemistry |
مصطلحات موضوعية: | genome survey, genomic SSR markers, SSR-HRM, genetic diversity, Luffa (L. cylindrica), Biology (General), QH301-705.5, Chemistry, QD1-999 |
الوصف: | Luffa cylindrica (L.) Roem. is an economically important vegetable crop in China. However, the genomic information on this species is currently unknown. In this study, for the first time, a genome survey of L. cylindrica was carried out using next-generation sequencing (NGS) technology. In total, 43.40 Gb sequence data of L. cylindrica, about 54.94× coverage of the estimated genome size of 789.97 Mb, were obtained from HiSeq 2500 sequencing, in which the guanine plus cytosine (GC) content was calculated to be 37.90%. The heterozygosity of genome sequences was only 0.24%. In total, 1,913,731 contigs (>200 bp) with 525 bp N50 length and 1,410,117 scaffolds (>200 bp) with 885.01 Mb total length were obtained. From the initial assembled L. cylindrica genome, 431,234 microsatellites (SSRs) (≥5 repeats) were identified. The motif types of SSR repeats included 62.88% di-nucleotide, 31.03% tri-nucleotide, 4.59% tetra-nucleotide, 0.96% penta-nucleotide and 0.54% hexa-nucleotide. Eighty genomic SSR markers were developed, and 51/80 primers could be used in both “Zheda 23” and “Zheda 83”. Nineteen SSRs were used to investigate the genetic diversity among 32 accessions through SSR-HRM analysis. The unweighted pair group method analysis (UPGMA) dendrogram tree was built by calculating the SSR-HRM raw data. SSR-HRM could be effectively used for genotype relationship analysis of Luffa species. |
نوع الوثيقة: | article |
وصف الملف: | electronic resource |
اللغة: | English |
تدمد: | 1422-0067 |
Relation: | https://www.mdpi.com/1422-0067/18/9/1942; https://doaj.org/toc/1422-0067 |
DOI: | 10.3390/ijms18091942 |
URL الوصول: | https://doaj.org/article/aaffb9339cb7432287be7cd1bec8271c |
رقم الأكسشن: | edsdoj.ffb9339cb7432287be7cd1bec8271c |
قاعدة البيانات: | Directory of Open Access Journals |
تدمد: | 14220067 |
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DOI: | 10.3390/ijms18091942 |