干旱区生态环境知识资源中心(Arid): First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora

Arid

DOI	10.1007/s11033-020-05758-z
	First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora
	Bhandari, Maneesh S.; Meena, Rajendra K.; Shamoon, Arzoo; Saroj, Shanti; Kant, Rama; Pandey, Shailesh
通讯作者	Bhandari, MS
来源期刊	MOLECULAR BIOLOGY REPORTS
ISSN	0301-4851
EISSN	1573-4978
出版年	2020
卷号	47 期号:9 页码:6997-7008
英文摘要	Salvadoraceae constitutes ecologically imperative desert families of 3 genera-Azima,DoberaandSalvadora. Under genusSalvadoraof this family,S. oleoidesis a keystone species of socio-economic and medicinal value. This species naturally grows in the arid zones but currently experiencing severe fragmentation due to land use change and reduced regeneration, which may have resulted in the depletion of genetic diversity. Hence, it is up-most important to develop genomic resources for studying the population genetics inS. oleoides. This study aims to develop robust microsatellites markers, which were not yet reported in genusSalvodoradue to lack of genome sequence information. We developed novel microsatellites markers inS. oleoidesusing Illumina paired-end sequencing technology. In total, 14,552 simple sequence repeat (SSR) markers were successfully designed from 21,055 microsatellite repeats detected in the 13 Gb raw sequence data. Afterwards, a subset of 101 SSRs were randomly selected and validated, 94 primers were successfully amplified and 34 showed polymorphisms. These SSRs were used to estimate the measures of genetic diversity in three natural populations of state Rajasthan and Gujarat. Importantly, average number of alleles (N-a), observed heterozygosity (H-o), expected heterozygosity (H-e), and polymorphism information content (PIC) were recorded as 2.4, 0.529, 0.357, and 0.326, respectively. Furthermore, 15 primers were evaluated inS. persicafor cross-transferability, and all were successfully amplified but only eight showed polymorphisms. This study has been conducted first time forS. oleoidesand pioneer among the native species of arid-zone in India.
英文关键词	Salvadoraceae Salvadora oleoides Genome sequencing Microsatellite markers Genetic diversity Salvadora persica
类型	Article
语种	英语
收录类别	SCI-E
WOS记录号	WOS:000570107000003
WOS关键词	MICROSATELLITE MARKERS ; GENETIC DIVERSITY ; POPULATION ; L. ; DISPERSAL ; SOFTWARE ; TREES ; DNA
WOS类目	Biochemistry & Molecular Biology
WOS研究方向	Biochemistry & Molecular Biology
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/326347
作者单位	[Bhandari, Maneesh S.; Meena, Rajendra K.; Shamoon, Arzoo; Saroj, Shanti; Kant, Rama] Forest Res Inst, Div Genet & Tree Improvement, Dehra Dun 248195, Uttarakhand, India; [Pandey, Shailesh] Forest Res Inst, Div Forest Protect, Forest Pathol Discipline, Dehra Dun 248006, Uttarakhand, India
推荐引用方式 GB/T 7714	Bhandari, Maneesh S.,Meena, Rajendra K.,Shamoon, Arzoo,et al. First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora[J],2020,47(9):6997-7008.
APA	Bhandari, Maneesh S.,Meena, Rajendra K.,Shamoon, Arzoo,Saroj, Shanti,Kant, Rama,&Pandey, Shailesh.(2020).First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora.MOLECULAR BIOLOGY REPORTS,47(9),6997-7008.
MLA	Bhandari, Maneesh S.,et al."First de novo genome specific development, characterization and validation of simple sequence repeat (SSR) markers in Genus Salvadora".MOLECULAR BIOLOGY REPORTS 47.9(2020):6997-7008.