PineElm_SSRdb: a microsatellite marker database identified from genomic, chloroplast, mitochondrial and EST sequences of pineapple (Ananas comosus (L.) Merrill). (December 2016)

• Record Type: Journal Article
• Authors: Chaudhary, Sakshi; Mishra, Bharat; Vivek, Thiruvettai; Magadum, Santoshkumar; Yasin, Jeshima
• Is Part Of: Hereditas. Volume 153:Number 1(2016:Jan.)
• Page Start: 1
• Page End: 6
• Publication Date: 2016-12
• Subjects: Ananas -- Genome wide marker analysis -- Organelle -- Pineapple -- Simple sequence repeats; Heredity -- Periodicals; Genetics -- Periodicals; Cytogénétique; Génétique; Hérédité; Périodique électronique (Descripteur de forme); Ressource Internet (Descripteur de forme); 576.5
• DOI: 10.1186/s41065-016-0019-8
• Languages: English
• ISSNs: 0018-0661

Abstract

Abstract Background Simple Sequence Repeats or microsatellites are resourceful molecular genetic markers. There are only few reports of SSR identification and development in pineapple. Complete genome sequence of pineapple available in the public domain can be used to develop numerous novel SSRs. Therefore, an attempt was made to identify SSRs from genomic, chloroplast, mitochondrial and EST sequences of pineapple which will help in deciphering genetic makeup of its germplasm resources. Results A total of 359511 SSRs were identified in pineapple (356385 from genome sequence, 45 from chloroplast sequence, 249 in mitochondrial sequence and 2832 from EST sequences). The list of EST-SSR markers and their details are available in the database. Conclusions PineElm_SSRdb is an open source database available for non-commercial academic purpose athttp://app.bioelm.com/ with a mapping tool which can develop circular maps of selected marker set. This database will be of immense use to breeders, researchers and graduates working onAnanas spp. and to others working on cross-species transferability of markers, investigating diversity, mapping and DNA fingerprinting.