De Novo Transcriptome Generation and Annotation for Two Korean Endemic Land Snails, Aegista Chejuensis and Aegista Quelpartensis, Using Illumina Paired-End Sequencing Technology

Overview

Journal Int J Mol Sci

Publisher MDPI

Specialties Biochemistry
Chemistry
Molecular Biology

Date 2016 Mar 22

PMID 26999110

Citations 6

Authors

Se Won Kang

Bharat Bhusan Patnaik

Hee-Ju Hwang

So Young Park

Tae Hun Wang

Eun Bi Park

Jong Min Chung

Dae Kwon Song

Hongray Howrelia Patnaik

Jae Bong Lee

Changmu Kim

Soonok Kim

Hong Seog Park

Jun Sang Lee

Yeon Soo Han

Yong Seok Lee

Affiliations

Soon will be listed here.

Abstract

Aegista chejuensis and Aegista quelpartensis (Family-Bradybaenidae) are endemic to Korea, and are considered vulnerable due to declines in their population. The limited genetic resources for these species restricts the ability to prioritize conservation efforts. We sequenced the transcriptomes of these species using Illumina paired-end technology. Approximately 257 and 240 million reads were obtained and assembled into 198,531 and 230,497 unigenes for A. chejuensis and A. quelpartensis, respectively. The average and N50 unigene lengths were 735.4 and 1073 bp, respectively, for A. chejuensis, and 705.6 and 1001 bp, respectively, for A. quelpartensis. In total, 68,484 (34.5%) and 77,745 (33.73%) unigenes for A. chejuensis and A. quelpartensis, respectively, were annotated to databases. Gene Ontology terms were assigned to 23,778 (11.98%) and 26,396 (11.45) unigenes, for A. chejuensis and A. quelpartensis, respectively, while 5050 and 5838 unigenes were mapped to 117 and 124 pathways in the Kyoto Encyclopedia of Genes and Genomes database. In addition, we identified and annotated 9542 and 10,395 putative simple sequence repeats (SSRs) in unigenes from A. chejuensis and A. quelpartensis, respectively. We designed a list of PCR primers flanking the putative SSR regions. These microsatellites may be utilized for future phylogenetics and conservation initiatives.

Citing Articles

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Park J, Patnaik B, Sang M, Song D, Jeong J, Hong C Genes Genomics. 2024; 46(7):851-870.

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Identification of Immediate Early Genes in the Nervous System of Snail .

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