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Comparative proteomics and codon substitution analysis reveal mechanisms of differential resistance to hypoxia in congeneric snails.

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Title: Comparative proteomics and codon substitution analysis reveal mechanisms of differential resistance to hypoxia in congeneric snails.
Authors: Mu, Huawei1, Sun, Jin2, Cheung, Siu Gin3, Fang, Ling4, Zhou, Haiyun4, Luan, Tiangang4,5, Zhang, Huoming6, Wong, Chris K.C.1, Qiu, Jian-Wen1 qiujw@hkbu.edu.hk
Source: Journal of Proteomics. Feb2018, Vol. 172, p36-48. 13p.
Subjects: Snails, Hypoxemia, Proteomics, Molecular biology, Comparative studies, Substitution reactions
Abstract: Although high-throughput proteomics has been widely applied to study mechanisms of environmental adaptation, the conclusions from studies that are based on one species can be confounded by phylogeny. We compare the freshwater snail Pomacea canaliculata (a notorious invasive species) and its congener Pomacea diffusa (a non-invasive species) to understand the molecular mechanisms of their differential resistance to hypoxia. A 72-h acute exposure experiment showed that P. canaliculata is more tolerant to hypoxia than P. diffusa . The two species were then exposed to three levels of dissolved oxygen (6.7, 2.0 and 1.0 mg L − 1 ) for 8 h, and their gill proteins were analyzed using iTRAQ-coupled LC-MS/MS. The two species showed striking differences in protein expression profiles, with the more hypoxia tolerant P. canaliculata having more up-regulated proteins in signal transduction and down-regulated proteins in glycolysis and the tricarboxylic acid cycle. Evolutionary analysis revealed five orthologous genes encoding differentially expressed proteins having clear signal of positive selection, indicating selection has acted on some of the hypoxia responsive genes. Our case study has highlighted the potential of integrated proteomics and comparative evolutionary analysis for understanding the genetic basis of adaptation to global environmental change in non-model species. Significance Rapid globalization in recent decades has greatly facilitated species introduction around the world. Successfully established introduced species, so-called invasive species, have threatened the invaded ecosystems. There has been substantial interest in studying how invasive species respond to extreme environmental conditions because the results can help not only predict their range of expansion and manage their impact, but also may reveal the adaptive mechanisms underlying their invasiveness. Our study has adopted a comparative approach to study the differential physiological and proteomic responses of two congeneric snails to various hypoxic conditions, as well as codon substitution analysis at transcriptomic level to detect signals of positive selection in hypoxia-responsive genes. The integrated physiological, proteomic and transcriptomic approach can be applied in other non-model species to understand the molecular mechanisms of adaptation to global environmental change. [ABSTRACT FROM AUTHOR]
Copyright of Journal of Proteomics is the property of Elsevier B.V. and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
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DbLabel: Engineering Source
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  Data: Comparative proteomics and codon substitution analysis reveal mechanisms of differential resistance to hypoxia in congeneric snails.
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  Data: <searchLink fieldCode="AR" term="%22Mu%2C+Huawei%22">Mu, Huawei</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Sun%2C+Jin%22">Sun, Jin</searchLink><relatesTo>2</relatesTo><br /><searchLink fieldCode="AR" term="%22Cheung%2C+Siu+Gin%22">Cheung, Siu Gin</searchLink><relatesTo>3</relatesTo><br /><searchLink fieldCode="AR" term="%22Fang%2C+Ling%22">Fang, Ling</searchLink><relatesTo>4</relatesTo><br /><searchLink fieldCode="AR" term="%22Zhou%2C+Haiyun%22">Zhou, Haiyun</searchLink><relatesTo>4</relatesTo><br /><searchLink fieldCode="AR" term="%22Luan%2C+Tiangang%22">Luan, Tiangang</searchLink><relatesTo>4,5</relatesTo><br /><searchLink fieldCode="AR" term="%22Zhang%2C+Huoming%22">Zhang, Huoming</searchLink><relatesTo>6</relatesTo><br /><searchLink fieldCode="AR" term="%22Wong%2C+Chris+K%2EC%2E%22">Wong, Chris K.C.</searchLink><relatesTo>1</relatesTo><br /><searchLink fieldCode="AR" term="%22Qiu%2C+Jian-Wen%22">Qiu, Jian-Wen</searchLink><relatesTo>1</relatesTo><i> qiujw@hkbu.edu.hk</i>
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  Data: <searchLink fieldCode="JN" term="%22Journal+of+Proteomics%22">Journal of Proteomics</searchLink>. Feb2018, Vol. 172, p36-48. 13p.
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  Data: <searchLink fieldCode="DE" term="%22Snails%22">Snails</searchLink><br /><searchLink fieldCode="DE" term="%22Hypoxemia%22">Hypoxemia</searchLink><br /><searchLink fieldCode="DE" term="%22Proteomics%22">Proteomics</searchLink><br /><searchLink fieldCode="DE" term="%22Molecular+biology%22">Molecular biology</searchLink><br /><searchLink fieldCode="DE" term="%22Comparative+studies%22">Comparative studies</searchLink><br /><searchLink fieldCode="DE" term="%22Substitution+reactions%22">Substitution reactions</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: Although high-throughput proteomics has been widely applied to study mechanisms of environmental adaptation, the conclusions from studies that are based on one species can be confounded by phylogeny. We compare the freshwater snail Pomacea canaliculata (a notorious invasive species) and its congener Pomacea diffusa (a non-invasive species) to understand the molecular mechanisms of their differential resistance to hypoxia. A 72-h acute exposure experiment showed that P. canaliculata is more tolerant to hypoxia than P. diffusa . The two species were then exposed to three levels of dissolved oxygen (6.7, 2.0 and 1.0 mg L − 1 ) for 8 h, and their gill proteins were analyzed using iTRAQ-coupled LC-MS/MS. The two species showed striking differences in protein expression profiles, with the more hypoxia tolerant P. canaliculata having more up-regulated proteins in signal transduction and down-regulated proteins in glycolysis and the tricarboxylic acid cycle. Evolutionary analysis revealed five orthologous genes encoding differentially expressed proteins having clear signal of positive selection, indicating selection has acted on some of the hypoxia responsive genes. Our case study has highlighted the potential of integrated proteomics and comparative evolutionary analysis for understanding the genetic basis of adaptation to global environmental change in non-model species. Significance Rapid globalization in recent decades has greatly facilitated species introduction around the world. Successfully established introduced species, so-called invasive species, have threatened the invaded ecosystems. There has been substantial interest in studying how invasive species respond to extreme environmental conditions because the results can help not only predict their range of expansion and manage their impact, but also may reveal the adaptive mechanisms underlying their invasiveness. Our study has adopted a comparative approach to study the differential physiological and proteomic responses of two congeneric snails to various hypoxic conditions, as well as codon substitution analysis at transcriptomic level to detect signals of positive selection in hypoxia-responsive genes. The integrated physiological, proteomic and transcriptomic approach can be applied in other non-model species to understand the molecular mechanisms of adaptation to global environmental change. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
  Group: Ab
  Data: <i>Copyright of Journal of Proteomics is the property of Elsevier B.V. and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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        Value: 10.1016/j.jprot.2017.11.002
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      – Code: eng
        Text: English
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      Pagination:
        PageCount: 13
        StartPage: 36
    Subjects:
      – SubjectFull: Snails
        Type: general
      – SubjectFull: Hypoxemia
        Type: general
      – SubjectFull: Proteomics
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      – SubjectFull: Molecular biology
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      – SubjectFull: Comparative studies
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      – SubjectFull: Substitution reactions
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      – TitleFull: Comparative proteomics and codon substitution analysis reveal mechanisms of differential resistance to hypoxia in congeneric snails.
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              Text: Feb2018
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              Y: 2018
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