Freshwater vertebrate metabarcoding on Illumina platforms using double-indexed primers of the mitochondrial 16S rRNA gene

被引：49

作者：

Vences, Miguel ^{[1
]}

Lyra, Mariana L. ^{[2
]}

Perl, R. G. Bina ^{[1
]}

Bletz, Molly C. ^{[1
]}

Stankovic, David ^{[3
]}

Lopes, Carla Martins ^{[2
]}

Jarek, Michael ^{[4
]}

Bhuju, Sabin ^{[4
]}

Geffers, Robert ^{[4
]}

Haddad, Celio F. B. ^{[2
]}

Steinfartz, Sebastian ^{[1
]}

机构：

[1] Braunschweig Univ Technol, Inst Zool, Mendelssohnstr 4, D-38106 Braunschweig, Germany

[2] Univ Estadual Paulista, Inst Biociencias, Dept Zool, BR-13506900 Rio Claro, SP, Brazil

[3] Univ Trieste, Dept Life Sci, Genet Lab, Via Licio Giorgieri 5, I-34127 Trieste, Italy

[4] Helmholtz Ctr Infect Res, Dept Genome Analyt, Braunschweig, Germany

来源：

CONSERVATION GENETICS RESOURCES | 2016年 / 8卷 / 03期

关键词：

eDNA; Double-indexed primers; Amphibians; Discoglossus; NUMT; ENVIRONMENTAL DNA; HETEROPLASMY; DIVERSITY; SEQUENCES; LIZARD; EDNA; TOOL;

D O I：

10.1007/s12686-016-0550-y

中图分类号：

X176 [生物多样性保护];

学科分类号：

090705 ;

摘要：

Metabarcoding is a promising tool for biodiversity inventories and other applications in conservation genetics. We developed a new pair of primers for efficient and affordable high-throughput analysis of a 250 base pair stretch of DNA from the mitochondrial 16S rRNA gene of vertebrates, especially amphibians and fishes. By adapting a double-indexed protocol for Illumina platforms, our approach allows pooling of hundreds of samples in a single sequencing run. We obtained high detection rates of 82-93 % for fish in two German streams, 70 % for mock mixes of DNA from amphibians and fishes, and could distinguish multiple gene copies in amphibians, probably caused by nuclear-mitochondrial transposed DNA or heteroplasmy.

引用

页码：323 / 327

页数：5

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