Exploration and Exploitation of Novel SSR Markers for Candidate Transcription Factor Genes in Lilium Species
| Autor: | Jong-In Park, Jong-Goo Kang, Ill-Sup Nou, Manosh Kumar Biswas, Mita Bagchi, Hoy-Taek Kim, Ujjal Kumar Nath, Abdul Kayum, Jewel Howlader, Sathishkumar Natarajan |
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| Jazyk: | angličtina |
| Rok vydání: | 2018 |
| Předmět: |
0106 biological sciences
0301 basic medicine transcription factor SSR markers genetic diversity Lilium species lcsh:QH426-470 01 natural sciences Article 03 medical and health sciences Gene mapping Genetic variation Genetics Genetics (clinical) Genetic diversity Lilium biology food and beverages biology.organism_classification lcsh:Genetics 030104 developmental biology Genetic marker Backcrossing Microsatellite Transcription Factor Gene 010606 plant biology & botany |
| Zdroj: | Genes Genes, Vol 9, Iss 2, p 97 (2018) Genes; Volume 9; Issue 2; Pages: 97 |
| ISSN: | 2073-4425 |
| Popis: | Lilies (Lilium sp.) are commercially important horticultural crops widely cultivated for their flowers and bulbs. Here, we conducted large-scale data mining of the lily transcriptome to develop transcription factor (TF)-associated microsatellite markers (TFSSRs). Among 216,768 unigenes extracted from our sequence data, 6966 unigenes harbored simple sequence repeats (SSRs). Seventy-one SSRs were associated with TF genes, and these were used to design primers and validate their potential as markers. These 71 SSRs were accomplished with 31 transcription factor families; including bHLH, MYB, C2H2, ERF, C3H, NAC, bZIP, and so on. Fourteen highly polymorphic SSRs were selected based on Polymorphic Information Content (PIC) values and used to study genetic diversity and population structure in lily accessions. Higher genetic diversity was observed in Longiflorum compared to Oriental and Asiatic populations. Lily accessions were divided into three sub-populations based in our structure analysis, and an un-rooted neighbor-joining tree effectively separated the accessions according to Asiatic, Oriental, and Longiflorum subgroups. Finally, we showed that 46 of the SSR-associated genes were differentially expressed in response to Botrytis elliptica infection. Thus, our newly developed TFSSR markers represent a powerful tool for large-scale genotyping, high-density and comparative mapping, marker-aided backcrossing, and molecular diversity analysis of Lilium sp. |
| Databáze: | OpenAIRE |
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