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Citation for Study 21988

Citation title: "Transcriptome analyses of immune tissues from three Japanese frogs (Genus Rana) reveals their utility in characterizing major histocompatibility complex class II".

Study name: "Transcriptome analyses of immune tissues from three Japanese frogs (Genus Rana) reveals their utility in characterizing major histocompatibility complex class II".

This study is part of submission 21988 (Status: Published).

Citation

Lau Q., Igawa T., Minei R., Kosch T.A., & Satta Y. 2017. Transcriptome analyses of immune tissues from three Japanese frogs (Genus Rana) reveals their utility in characterizing major histocompatibility complex class II. BMC Genomics, .

Authors

• Lau Q. (submitter)
• Igawa T.
• Minei R.
• Kosch T.A.
• Satta Y.

Abstract

Background: In Japan and East Asia, endemic frogs appear to be tolerant or not susceptible to chytridiomycosis, a deadly amphibian disease caused by the chytrid fungus Batrachochytridium dendrobatidis (Bd). Japanese frogs may have evolved mechanisms of immune resistance to pathogens such as Bd. This study characterizes immune genes expressed in various tissues of healthy Japanese Rana frogs. Results: We generated transcriptome data sets of skin, spleen and blood from three adult Japanese Ranidae frogs (Japanese brown frog Rana japonica, the montane brown frog Rana ornativentris, and Tago?s brown frog Rana tagoi tagoi) as well as whole body of R. japonica and R. ornativentris tadpoles. From this, we identified tissue- and stage-specific differentially expressed genes; in particular, the spleen was most enriched for immune-related genes. A specific immune gene, major histocompatibility complex class IIB (MHC-IIB), was further characterized due to its role in pathogen recognition. We identified a total of 33 MHC-IIB variants from the three focal species (n = 7 individuals each), which displayed evolutionary signatures related to increased MHC variation, including balancing selection. Our supertyping analyses of MHC-IIB variants from Japanese frogs and previously studied frog species identified potential physiochemical properties of MHC-II that may be important for recognizing and binding chytrid-related antigens. Conclusions: This is one of the first studies to generate transcriptomic resources for Japanese frogs, and contributes to further understanding the immunogenetic factors associated with resistance to infectious diseases in amphibians such as chytridiomycosis. Notably, MHC-IIB supertyping analyses identified unique functional properties of specific MHC-IIB alleles that may partially contribute to Bd resistance, and such properties provide a springboard for future experimental validation.

Keywords

Ranidae, chytridiomycosis, MHC supertypes, RNA-Seq, Rana japonica, Rana ornativentris, Rana tagoi, antimicrobial peptides

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S21988
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref27936,
  	 author = {Quintin  Lau and Takeshi  Igawa and Ryuhei  Minei and Tiffany A Kosch and Yoko  Satta},
  	 title = {Transcriptome analyses of immune tissues from three Japanese frogs (Genus Rana) reveals their utility in characterizing major histocompatibility complex class II},
  	 year = {2017},
  	 keywords = {Ranidae, chytridiomycosis, MHC supertypes, RNA-Seq, Rana japonica, Rana ornativentris, Rana tagoi, antimicrobial peptides},
  	 doi = {},
  	 url = {},
  	 pmid = {},
  	 journal = {BMC Genomics},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Background: In Japan and East Asia, endemic frogs appear to be tolerant or not susceptible to chytridiomycosis, a deadly amphibian disease caused by the chytrid fungus Batrachochytridium dendrobatidis (Bd). Japanese frogs may have evolved mechanisms of immune resistance to pathogens such as Bd. This study characterizes immune genes expressed in various tissues of healthy Japanese Rana frogs.
  Results: We generated transcriptome data sets of skin, spleen and blood from three adult Japanese Ranidae frogs (Japanese brown frog Rana japonica, the montane brown frog Rana ornativentris, and Tago?s brown frog Rana tagoi tagoi) as well as whole body of R. japonica and R. ornativentris tadpoles. From this, we identified tissue- and stage-specific differentially expressed genes; in particular, the spleen was most enriched for immune-related genes. A specific immune gene, major histocompatibility complex class IIB (MHC-IIB), was further characterized due to its role in pathogen recognition. We identified a total of 33 MHC-IIB variants from the three focal species (n = 7 individuals each), which displayed evolutionary signatures related to increased MHC variation, including balancing selection. Our supertyping analyses of MHC-IIB variants from Japanese frogs and previously studied frog species identified potential physiochemical properties of MHC-II that may be important for recognizing and binding chytrid-related antigens. 
  Conclusions: This is one of the first studies to generate transcriptomic resources for Japanese frogs, and contributes to further understanding the immunogenetic factors associated with resistance to infectious diseases in amphibians such as chytridiomycosis. Notably, MHC-IIB supertyping analyses identified unique functional properties of specific MHC-IIB alleles that may partially contribute to Bd resistance, and such properties provide a springboard for future experimental validation.
  }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 27936
  AU  - Lau,Quintin 
  AU  - Igawa,Takeshi 
  AU  - Minei,Ryuhei 
  AU  - Kosch,Tiffany A
  AU  - Satta,Yoko 
  T1  - Transcriptome analyses of immune tissues from three Japanese frogs (Genus Rana) reveals their utility in characterizing major histocompatibility complex class II
  PY  - 2017
  KW  - Ranidae
  KW  - chytridiomycosis
  KW  - MHC supertypes
  KW  - RNA-Seq
  KW  - Rana japonica
  KW  - Rana ornativentris
  KW  - Rana tagoi
  KW  - antimicrobial peptides
  UR  - 
  N2  - Background: In Japan and East Asia, endemic frogs appear to be tolerant or not susceptible to chytridiomycosis, a deadly amphibian disease caused by the chytrid fungus Batrachochytridium dendrobatidis (Bd). Japanese frogs may have evolved mechanisms of immune resistance to pathogens such as Bd. This study characterizes immune genes expressed in various tissues of healthy Japanese Rana frogs.
  Results: We generated transcriptome data sets of skin, spleen and blood from three adult Japanese Ranidae frogs (Japanese brown frog Rana japonica, the montane brown frog Rana ornativentris, and Tago?s brown frog Rana tagoi tagoi) as well as whole body of R. japonica and R. ornativentris tadpoles. From this, we identified tissue- and stage-specific differentially expressed genes; in particular, the spleen was most enriched for immune-related genes. A specific immune gene, major histocompatibility complex class IIB (MHC-IIB), was further characterized due to its role in pathogen recognition. We identified a total of 33 MHC-IIB variants from the three focal species (n = 7 individuals each), which displayed evolutionary signatures related to increased MHC variation, including balancing selection. Our supertyping analyses of MHC-IIB variants from Japanese frogs and previously studied frog species identified potential physiochemical properties of MHC-II that may be important for recognizing and binding chytrid-related antigens. 
  Conclusions: This is one of the first studies to generate transcriptomic resources for Japanese frogs, and contributes to further understanding the immunogenetic factors associated with resistance to infectious diseases in amphibians such as chytridiomycosis. Notably, MHC-IIB supertyping analyses identified unique functional properties of specific MHC-IIB alleles that may partially contribute to Bd resistance, and such properties provide a springboard for future experimental validation.
  
  L3  - 
  JF  - BMC Genomics
  VL  - 
  IS  - 
  ER  -