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Choi S, Kim SJ, Kim EB. Complete mitochondrial DNA sequence of Raja pulchra from Yellow Sea and Alaska. MITOCHONDRIAL DNA PART B-RESOURCES 2019. [DOI: 10.1080/23802359.2018.1547144] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Sukjung Choi
- Laboratory of Microbial Genomics and Big Data, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
| | - Soo Jin Kim
- Laboratory of Microbial Genomics and Big Data, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
- Division of Applied Animal Science, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
| | - Eun Bae Kim
- Laboratory of Microbial Genomics and Big Data, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
- Division of Applied Animal Science, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
- Department of Animal Life Science, College of Animal Life Sciences, Kangwon National University, Chuncheon, Kangwon-do, Republic of Korea
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Zorio DAR, Monsma S, Sanes DH, Golding NL, Rubel EW, Wang Y. De novo sequencing and initial annotation of the Mongolian gerbil (Meriones unguiculatus) genome. Genomics 2018. [PMID: 29526484 DOI: 10.1016/j.ygeno.2018.03.001] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
The Mongolian gerbil (Meriones unguiculatus) is a member of the rodent family that displays several features not found in mice or rats, including sensory specializations and social patterns more similar to those in humans. These features have made gerbils a valuable animal for research studies of auditory and visual processing, brain development, learning and memory, and neurological disorders. Here, we report the whole gerbil annotated genome sequence, and identify important similarities and differences to the human and mouse genomes. We further analyze the chromosomal structure of eight genes with high relevance for controlling neural signaling and demonstrate a high degree of homology between these genes in mouse and gerbil. This homology increases the likelihood that individual genes can be rapidly identified in gerbil and used for genetic manipulations. The availability of the gerbil genome provides a foundation for advancing our knowledge towards understanding evolution, behavior and neural function in mammals. ACCESSION NUMBER: The Whole Genome Shotgun sequence data from this project has been deposited at DDBJ/ENA/GenBank under the accession NHTI00000000. The version described in this paper is version NHTI01000000. The fragment reads, and mate pair reads have been deposited in the Sequence Read Archive under BioSample accession SAMN06897401.
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Affiliation(s)
- Diego A R Zorio
- Department of Biomedical Sciences, College of Medicine, Florida State University, Tallahassee, FL, USA.
| | | | - Dan H Sanes
- Center for Neural Science, New York University, New York, NY, USA
| | - Nace L Golding
- University of Texas at Austin, Department of Neuroscience, Center for Learning and Memory, Austin, TX, USA
| | - Edwin W Rubel
- Virginia Merrill Bloedel Hearing Research Center, Department of Otolaryngology-Head and Neck Surgery, University of Washington, Seattle, WA, USA
| | - Yuan Wang
- Department of Biomedical Sciences, College of Medicine, Florida State University, Tallahassee, FL, USA; Program in Neuroscience, Florida State University, Tallahassee, FL, USA.
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Hwang JY, Jin GD, Park J, Kim H, Lee CK, Kwak W, Nam BH, An CM, Park JY, Park KH, Huh CS, Kim EB. Complete genome sequence and SNPs of Raja pulchra (Rajiformes, Rajidae) mitochondria. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2975-7. [PMID: 26122344 DOI: 10.3109/19401736.2015.1060467] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Mitochondrial genomes were sequenced from five Raja pulchra individuals, and single-nucleotide polymorphisms (SNPs) were identified by comparing previously announced sequences in this study. Total 117 SNPs were detected and they were present in 2 rRNA genes, 9 tRNA genes, 13 protein coding genes and non-coding region. One deleted polymorphic site, which was located in 16S rRNA gene, was observed in two individuals. Six polymorphic sites were non-synonymous SNPs, which were distributed in ND1, ND2, ATP6 and ND4 gene. Phylogenic analysis validated current taxa. The genome sequences of R. pulchra mitochondria could be comparable information for understanding species divergence and genomic variation among the populations.
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Affiliation(s)
| | | | - Jongbin Park
- b Department of Animal Life System , Kangwon National University , Chuncheon , Republic of Korea
| | - Heebal Kim
- c Department of Agricultural Biotechnology , Animal Biotechnology Major, Research Institute for Agriculture and Life Sciences, Seoul National University , Seoul , Republic of Korea .,d Institute of Green Bio Science and Technology, Seoul National University , Pyeongchang , Republic of Korea
| | - Chang-Kyu Lee
- c Department of Agricultural Biotechnology , Animal Biotechnology Major, Research Institute for Agriculture and Life Sciences, Seoul National University , Seoul , Republic of Korea .,d Institute of Green Bio Science and Technology, Seoul National University , Pyeongchang , Republic of Korea
| | - Woori Kwak
- c Department of Agricultural Biotechnology , Animal Biotechnology Major, Research Institute for Agriculture and Life Sciences, Seoul National University , Seoul , Republic of Korea .,e C&K Genomics, Seoul National University Research Park , Seoul , Republic of Korea
| | - Bo-Hye Nam
- f Biotechnology Research Division , National Fisheries Research & Development Institute , Busan , Republic of Korea , and
| | - Cheul Min An
- f Biotechnology Research Division , National Fisheries Research & Development Institute , Busan , Republic of Korea , and
| | - Jung Youn Park
- f Biotechnology Research Division , National Fisheries Research & Development Institute , Busan , Republic of Korea , and
| | - Kyu-Hyun Park
- b Department of Animal Life System , Kangwon National University , Chuncheon , Republic of Korea
| | - Chul-Sung Huh
- g Graduate School of International Agricultural Technology/GBST, Seoul National University , Pyeongchang , Republic of Korea
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