The first insight into the salvia (Lamiaceae) genome via BAC library construction and high-throughput sequencing of target BAC clones. | [Pakistan Journal of Botany • 2015]

Author(s):

1. Da Cheng Hao: Biotechnology Institute, School of Environment, Dalian Jiaotong University, Dalian, China

2. Sonia Vautrin: INRA-CNRGV, UR1258, 31326 Castanet Tolosan Cedex, France

3. Chi Song: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Beijing, China

4. Ying Jie Zhu: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Beijing, China

5. Helene Berges: INRA-CNRGV, UR1258, 31326 Castanet Tolosan Cedex, France

6. Chao Sun: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Beijing, China

7. Shi Lin Chen: Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences, Beijing, China;Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, China

Abstract:

Salvia is a representative genus of Lamiaceae, a eudicot family with significant species diversity and population adaptibility. One of the key goals of Salvia genomics research is to identify genes of adaptive significance. This information may help to improve the conservation of adaptive genetic variation and the management of medicinal plants to increase their health and productivity. Large-insert genomic libraries are a fundamental tool for achieving this purpose. We report herein the construction, characterization and screening of a gridded BAC library for Salvia officinalis (sage). The S. officinalis BAC library consists of 17,764 clones and the average insert size is 107 Kb, corresponding to ~3 haploid genome equivalents. Seventeen positive clones (average insert size 115 Kb) containing five terpene synthase (TPS) genes were screened out by PCR and 12 of them were subject to Illumina HiSeq 2000 sequencing, which yielded 28,097,480 90-bp raw reads (2.53 Gb). Scaffolds containing sabinene synthase (Sab), a Sab homolog, TPS3 (kaurene synthase-like 2), copalyl diphosphate synthase 2 and one cytochrome P450 gene were retrieved via de novo assembly and annotation, which also have flanking noncoding sequences, including predicted promoters and repeat sequences. Among 2,638 repeat sequences, there are 330 amplifiable microsatellites. This BAC library provides a new resource for Lamiaceae genomic studies, including microsatellite marker development, physical mapping, comparative genomics and genome sequencing. Characterization of positive clones provided insights into the structure of the Salvia genome. These sequences will be used in the assembly of a future genome sequence for S. officinalis.

Page(s): 1347-1357

DOI: DOI not available

Published: Journal: Pakistan Journal of Botany, Volume: 47, Issue: 4, Year: 2015

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