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Li J, Guo X. A complete mitogenome of the Przewalski's Wonder Gecko ( Teratoscincus przewalskii) from the Junggar Basin in Northwest China with its phylogenetic implications. Mitochondrial DNA B Resour 2023; 8:398-401. [PMID: 37554553 PMCID: PMC10405747 DOI: 10.1080/23802359.2023.2186722] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2022] [Accepted: 02/28/2023] [Indexed: 03/14/2023] Open
Abstract
A complete mitogenome of the Przewalski's Wonder Gecko (Teratoscincus przewalskii) from the Junggar Basin in Northwest China was determined by using polymerase chain reaction and directly sequenced with the primer walking method. The total length was 17,184 bp, containing 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), two ribosomal RNA genes (rRNAs) and a control region (CR). The order and structure of the genes were identical to those of congeners. The 13 PCGs contain four start codons (ATG, GTG, ATA, and ATC), three complete stop codons (TAA, TAG, and AGG), and two incomplete stop codons (T-, TA-). The concatenated PCGs were used to perform Bayesian phylogenetic analyses together with mitogenome data of the family Sphaerodactylidae and related representative taxa available in GenBank. The resulting tree recovered the monophyly of Sphaerodactylidae, and confirmed the sister relationship between T. przewalskii and T. roborowskii with strong support. The newly determined mitogenome will provide fundamental data for understanding the population genetic structure of T. pzrewalskii in particular, and the mitochondrial DNA evolution in Sphaerodactylidae in general.
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Affiliation(s)
- Jun Li
- Xinjiang Key Laboratory of Biological Resources and Genetic Engineering, College of Life Science and Technology, Xinjiang University, Urumqi, China
| | - Xianguang Guo
- Key Laboratory of Southwest China Wildlife Resources Conservation (Ministry of Education), China West Normal University, Nanchong, China
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Dufresnes C, Mahony S, Prasad VK, Kamei RG, Masroor R, Khan MA, Al-Johany AM, Gautam KB, Gupta SK, Borkin LJ, Melnikov DA, Rosanov JM, Skorinov DV, Borzée A, Jablonski D, Litvinchuk SN. Shedding light on taxonomic chaos: Diversity and distribution of South Asian skipper frogs (Anura, Dicroglossidae, Euphlyctis). SYST BIODIVERS 2022. [DOI: 10.1080/14772000.2022.2102686] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Affiliation(s)
- Christophe Dufresnes
- LASER, College of Biology and the Environment, Nanjing Forestry University, Nanjing, People’s Republic of China
| | - Stephen Mahony
- School of Biology and Environmental Science, University College Dublin, Dublin 4, Ireland
- Department of Life Sciences, The Natural History Museum, London, UK
| | - Vishal Kumar Prasad
- Laboratory of Animal Behaviour and Conservation, College of Biology and the Environment, Nanjing Forestry University, People’s Republic of China
- Wildlife Institute of India, Chandrabani, Uttarakhand, India
| | - Rachunliu G. Kamei
- Department of Life Sciences, The Natural History Museum, London, UK
- 566 Kohima-Meriema Road (AH1), Meriema, Kohima, 797001, Nagaland, India
| | - Rafaqat Masroor
- Zoological Sciences Division, Pakistan Museum of Natural History, Garden Avenue, Shakarparian, 44000, Islamabad Pakistan
| | - Muazzam Ali Khan
- Department of Botany, Bacha Khan University Charsadda, Charsadda, KP, Pakistan
| | - Awadh M. Al-Johany
- Department of Zoology, King Saud University, Riyadh, 11451, Kingdom of Saudi Arabia
| | | | | | - Leo J. Borkin
- Laboratory of Herpetology, Zoological Institute, Russian Academy of Sciences, Saint Petersburg, 199034, Russia
| | - Daniel A. Melnikov
- Laboratory of Herpetology, Zoological Institute, Russian Academy of Sciences, Saint Petersburg, 199034, Russia
| | - Juriy M. Rosanov
- Institute of Cytology, Russian Academy of Sciences, Saint Petersburg, Russia
| | - Dmitriy V. Skorinov
- Institute of Cytology, Russian Academy of Sciences, Saint Petersburg, Russia
| | - Amaël Borzée
- Laboratory of Animal Behaviour and Conservation, College of Biology and the Environment, Nanjing Forestry University, People’s Republic of China
| | - Daniel Jablonski
- Department of Zoology, Comenius University, in Bratislava, Mlynská dolina, Ilkovičova 6, Bratislava, 842 15, Slovakia
| | - Spartak N. Litvinchuk
- Institute of Cytology, Russian Academy of Sciences, Saint Petersburg, Russia
- Dagestan State University, Makhachkala, Russia
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Calvete JJ, Pla D, Els J, Carranza S, Damm M, Hempel BF, John EBO, Petras D, Heiss P, Nalbantsoy A, Göçmen B, Süssmuth RD, Calderón-Celis F, Nosti AJ, Encinar JR. Combined Molecular and Elemental Mass Spectrometry Approaches for Absolute Quantification of Proteomes: Application to the Venomics Characterization of the Two Species of Desert Black Cobras, Walterinnesia aegyptia and Walterinnesia morgani. J Proteome Res 2021; 20:5064-5078. [PMID: 34606723 PMCID: PMC8576837 DOI: 10.1021/acs.jproteome.1c00608] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
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We report a novel hybrid, molecular
and elemental mass spectrometry
(MS) setup for the absolute quantification of snake venom proteomes
shown here for two desert black cobra species within the genus Walterinnesia, Walterinnesia aegyptia and Walterinnesia morgani. The experimental
design includes the decomplexation of the venom samples by reverse-phase
chromatography independently coupled to four mass spectrometry systems:
the combined bottom-up and top-down molecular MS for protein identification
and a parallel reverse-phase microbore high-performance liquid chromatograph
(RP-μHPLC) on-line to inductively coupled plasma (ICP-MS/MS)
elemental mass spectrometry and electrospray ionization quadrupole
time-of-flight mass spectrometry (ESI-QToF MS). This allows to continuously
record the absolute sulfur concentration throughout the chromatogram
and assign it to the parent venom proteins separated in the RP-μHPLC-ESI-QToF
parallel run via mass profiling. The results provide a locus-resolved
and quantitative insight into the three desert black cobra venom proteome
samples. They also validate the units of measure of our snake venomics
strategy for the relative quantification of snake venom proteomes
as % of total venom peptide bonds as a proxy for the % by weight of
the venom toxins/toxin families. In a more general context, our work
may pave the way for broader applications of hybrid elemental/molecular
MS setups in diverse areas of proteomics.
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Affiliation(s)
- Juan J Calvete
- Laboratorio de Venómica Evolutiva y Traslational, Instituto de Biomedicina de Valencia, Consejo Superior de Investigaciones Científicas (CSIC), Jaume Roig 11, 46010 Valencia, Spain
| | - Davinia Pla
- Laboratorio de Venómica Evolutiva y Traslational, Instituto de Biomedicina de Valencia, Consejo Superior de Investigaciones Científicas (CSIC), Jaume Roig 11, 46010 Valencia, Spain
| | - Johannes Els
- Environment and Protected Areas Authority, 82828 Sharjah, United Arab Emirates
| | - Salvador Carranza
- Institute of Evolutionary Biology, CSIC-Universitat Pompeu Fabra, 08003 Barcelona, Spain
| | - Maik Damm
- Department of Chemistry, Technische Universität Berlin, 10623 Berlin, Germany
| | - Benjamin-Florian Hempel
- Department of Chemistry, Technische Universität Berlin, 10623 Berlin, Germany.,BIH Center for Regenerative Therapies BCRT, Charité-Universitätsmedizin Berlin, 13353 Berlin, Germany
| | - Elisa B O John
- Center of Biotechnology, Universidade Federal do Rio Grande do Sul, CEP 91501-970 Porto Alegre, RS, Brazil
| | - Daniel Petras
- CMFI Cluster of Excellence, Interfaculty Institute of Microbiology and Medicine, University of Túbingen, 72076 Tübingen, Germany
| | - Paul Heiss
- Department of Chemistry, Technische Universität Berlin, 10623 Berlin, Germany
| | - Ayse Nalbantsoy
- Department of Bioengineering, Faculty of Engineering, Ege University, 35100 Bornova, Izmir, Turkey
| | - Bayram Göçmen
- Zoology Section, Department of Biology, Faculty of Science, Ege University, 35100 Bornova, Izmir, Turkey
| | - Roderich D Süssmuth
- Department of Chemistry, Technische Universität Berlin, 10623 Berlin, Germany
| | | | - Alicia Jiménez Nosti
- Department of Physical and Analytical Chemistry, University of Oviedo, 33006 Oviedo, Spain
| | - Jorge Ruiz Encinar
- Department of Physical and Analytical Chemistry, University of Oviedo, 33006 Oviedo, Spain
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Yu H, Liu Y, Liu Y, Yang J, Li S, Bi J, Zhang R. Complete mitochondrial genome of Teratoscincus przewalskii (Reptilia, Squamata, Sphaerodactylidae) and phylogenetic analysis. MITOCHONDRIAL DNA PART B-RESOURCES 2021; 6:3166-3168. [PMID: 34660892 PMCID: PMC8519532 DOI: 10.1080/23802359.2021.1987162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
The complete mitochondrial genome of the lizard, Teratoscincus przewalskii, which belongs to the family Sphaerodactylidae was determined based on Illumina data in this study. The result showed that the closed double-stranded circular mitogenome was 16,779 bp in total length (GenBank accession number: MW491837) with 44.07% GC. The complete mitochondrial genome consisted of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal genes, and one noncoding control region. Phylogenetic analysis using mitochondrial genomes suggested that T. przewalskii was most closely related to its congener T. keyserlingii. This work provides valuable molecular information for further research on species identification and molecular evolution.
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Affiliation(s)
- Hui Yu
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China.,Key Laboratory of Biodiversity conservation and Sustainable utilization for College and University of Inner Mongolia Autonomous Region, Hohhot, Inner Mongolia, China
| | - Yang Liu
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China
| | - Yan Liu
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China
| | - Junmei Yang
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China
| | - Siqi Li
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China
| | - Junhuai Bi
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China
| | - Ruidong Zhang
- College of Life Sciences and Technology, Inner Mongolia Normal University, Hohhot, Inner Mongolia, China.,Key Laboratory of Biodiversity conservation and Sustainable utilization for College and University of Inner Mongolia Autonomous Region, Hohhot, Inner Mongolia, China
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