干旱区生态环境知识资源中心(Arid): Development of a Genotyping Protocol for Mojave Desert Tortoise Scat

Arid

DOI	10.2744/CCB-1394.1
	Development of a Genotyping Protocol for Mojave Desert Tortoise Scat
	Mitelberg, Anna; Vandergast, Amy G.; Nussear, Ken E.; Dutcher, Kirsten; Esque, Todd C.
通讯作者	Vandergast, AG (corresponding author), US Geol Survey, Western Ecol Res Ctr, 3020 State Univ Dr,Modoc Hall,Room 4004, Sacramento, CA 95819 USA.
来源期刊	CHELONIAN CONSERVATION AND BIOLOGY
ISSN	1071-8443
EISSN	1943-3956
出版年	2019
卷号	18 期号:2 页码:123-132
英文摘要	Noninvasive fecal genotyping can be a useful tool for population monitoring of elusive species. We tested extraction protocols on scat samples from the threatened Mojave Desert tortoise, Gopherus agassizii, to evaluate whether scat-based mark-recapture and population genetic monitoring studies are feasible. We extracted DNA from G. agassizii scat samples collected in California and Nevada using several extraction protocols and evaluated the reliability of resulting genotypes using quality scores, maximum likelihood reliability estimates, and paired scat and blood genotypes from the same individuals. Finally, we assessed probabilities of identity and sibship, and locus amplification quality, and calculated genotyping error rates for 19 microsatellite loci to determine the best set of loci to use with G. agassizii scat extractions. We found that genotype quality depended more on the sample quality than on the extraction method, and that the Qiagen DNeasy Plant Mini extraction kit is an efficient method for extracting tortoise DNA from tortoise scat. We identified 6 G. agassizii microsatellite loci that can be used to generate a unique molecular tag for individual tortoises. We characterized the reliability of an additional 13 microsatellite loci for use in population genetic analyses where additional power at the expense of some increase in error may be advantageous. As proof of concept, with very low error rates, we matched 3 opportunistically collected scat samples to blood genotypes from animals captured during population surveys within the study area and discovered at least 3 new individuals, even after 2 yrs of extensive survey work. These results suggest that genotyping of field-collected scat can complement existing methods used in long-term demographic and movement studies of G. agassizii and other, closely related, tortoise species.
英文关键词	California Gopherus agassizii genetics microsatellites Nevada noninvasive sampling
类型	Article
语种	英语
开放获取类型	Bronze
收录类别	SCI-E
WOS记录号	WOS:000512998400001
WOS关键词	MICROSATELLITE LOCI ; DNA ; GOPHERUS ; ERRORS ; PCR ; SUCCESS ; CONSERVATION ; RELIABILITY ; TIME ; DIET
WOS类目	Zoology
WOS研究方向	Zoology
来源机构	United States Geological Survey
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/369385
作者单位	[Mitelberg, Anna; Vandergast, Amy G.; Esque, Todd C.] US Geol Survey, Western Ecol Res Ctr, 3020 State Univ Dr,Modoc Hall,Room 4004, Sacramento, CA 95819 USA; [Nussear, Ken E.; Dutcher, Kirsten] Univ Nevada, Dept Geog, Mackay Sci Hall,1664 North Virginia St, Reno, NV 89557 USA
推荐引用方式 GB/T 7714	Mitelberg, Anna,Vandergast, Amy G.,Nussear, Ken E.,et al. Development of a Genotyping Protocol for Mojave Desert Tortoise Scat[J]. United States Geological Survey,2019,18(2):123-132.
APA	Mitelberg, Anna,Vandergast, Amy G.,Nussear, Ken E.,Dutcher, Kirsten,&Esque, Todd C..(2019).Development of a Genotyping Protocol for Mojave Desert Tortoise Scat.CHELONIAN CONSERVATION AND BIOLOGY,18(2),123-132.
MLA	Mitelberg, Anna,et al."Development of a Genotyping Protocol for Mojave Desert Tortoise Scat".CHELONIAN CONSERVATION AND BIOLOGY 18.2(2019):123-132.