De Novo Transcriptome Analysis of Cucumis melo L. var. makuwa
| Autor: | Sung-Hwan Jo, Min-Seon Lee, Seok-Hyeon Nahm, Suk-Yoon Kwon, Ah-Young Shin, Hee-Jeong Lee, Jongmoon Ahn, Jeong Mee Park, Heung-Ryul Lee, Hyun A Kim |
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| Rok vydání: | 2016 |
| Předmět: |
0106 biological sciences
0301 basic medicine Genetic Linkage Melon Korean melon Flowers Biology Subspecies Plant Roots Polymorphism Single Nucleotide 01 natural sciences Article Transcriptome 03 medical and health sciences chemistry.chemical_compound transcriptome analysis simple sequence repeat Cucumis melo Molecular marker Botany genetic linkage map Molecular Biology Genetics Molecular breeding Gene Expression Profiling Chromosome Mapping food and beverages Sequence Analysis DNA Cell Biology General Medicine single-nucleotide polymorphism biology.organism_classification Plant Leaves 030104 developmental biology chemistry Fruit Microsatellite Cucumis Genome Plant Microsatellite Repeats 010606 plant biology & botany |
| Zdroj: | Molecules and Cells |
| ISSN: | 0219-1032 1016-8478 |
| DOI: | 10.14348/molcells.2016.2264 |
| Popis: | Oriental melon (Cucumis melo L. var. makuwa) is one of six subspecies of melon and is cultivated widely in East Asia, including China, Japan, and Korea. Although oriental melon is economically valuable in Asia and is genetically distinct from other subspecies, few reports of genome-scale research on oriental melon have been published. We generated 30.5 and 36.8 Gb of raw RNA sequence data from the female and male flowers, leaves, roots, and fruit of two oriental melon varieties, Korean landrace (KM) and Breeding line of NongWoo Bio Co. (NW), respectively. From the raw reads, 64,998 transcripts from KM and 100,234 transcripts from NW were de novo assembled. The assembled transcripts were used to identify molecular markers (e.g., single-nucleotide polymorphisms and simple sequence repeats), detect tissue-specific expressed genes, and construct a genetic linkage map. In total, 234 single-nucleotide polymorphisms and 25 simple sequence repeats were screened from 7,871 and 8,052 candidates, respectively, between the KM and NW varieties and used for construction of a genetic map with 94 F2 population specimens. The genetic linkage map consisted of 12 linkage groups, and 248 markers were assigned. These transcriptome and molecular marker data provide information useful for molecular breeding of oriental melon and further comparative studies of the Cucurbitaceae family. |
| Databáze: | OpenAIRE |
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