Transcriptome landscaping for gene mining and SSR marker development in Coriander (Coriandrum sativum L.)

Nilam J Tulsani; Rasmieh Hamid; Feba Jacob; Nimita G Umretiya; Abhijeeta K Nandha; Rukam S Tomar; Balaji A Golakiya

doi:10.1016/j.ygeno.2019.09.004

Transcriptome landscaping for gene mining and SSR marker development in Coriander (Coriandrum sativum L.)

Genomics. 2020 Mar;112(2):1545-1553. doi: 10.1016/j.ygeno.2019.09.004. Epub 2019 Sep 7.

Authors

Nilam J Tulsani¹, Rasmieh Hamid², Feba Jacob³, Nimita G Umretiya⁴, Abhijeeta K Nandha⁵, Rukam S Tomar⁶, Balaji A Golakiya⁶

Affiliations

¹ Department of Animal Biotechnology, College of Veterinary Science and Animal Husbandry, Anand Agricultural University, Anand, Gujarat, India.
² Department of Biotechnology and Plant Breeding, Ferdowsi University of Mashhad, Iran. Electronic address: rasihamid@gmail.com.
³ Centre for Plant Biotechnology and Molecular Biology, Kerala Agricultural University, Thrissur, India.
⁴ Food Quality Testing Laboratory, Navsari Agricultural University, Navsari 396445, India.
⁵ Department of Genetics and plant breeding, College of Agriculture, Parul University, Baroda 390019, India.
⁶ Department of Biotechnology and Biochemistry, Junagadh Agricultural University, Junagadh, Gujarat, India.

PMID: 31505244
DOI: 10.1016/j.ygeno.2019.09.004

Abstract

Coriander (Coriandrum sativum L.) is an aromatic herb, widely used as a spice and is of great pharmaceutical interest. Despite high medicinal and economic value, there is a dearth of genomic information about profiling as well as the expressed sequence-based genic markers. In this study, transcriptome was sequenced from seeds, leaves, and flower for gene mining and identification of SSR markers. A total of 9746 SSR containing loci were identified, the most abundant type of SSR identified were the di-nucleotide repeat motifs (45.5%), followed by tri- (34.6%), tetra- (4.5%), penta- (1.5%) and hexanucleotide repeats (1%). A total of 3795 primers were designed, out of which 120 randomly selected were validated in 14 accessions of coriander cultivated in India. The current study provides useful information about preliminary transcriptome sketch and genic markers, which can be useful in breeding and genetic diversity estimation of coriander.

Keywords: Coriandrum sativum; Genetic variation; Genic SSR; Transcriptome.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Coriandrum / genetics*
Genetic Markers
Genome-Wide Association Study / methods
Genome-Wide Association Study / standards
Genotyping Techniques / methods
Genotyping Techniques / standards
Microsatellite Repeats*
Polymorphism, Genetic
Transcriptome*

Substances

Genetic Markers