您好，欢迎访问中国水产科学研究院 机构知识库！
中国水产科学研究院机构知识库

全部

  • 全部
  • 标题
  • 学者
  • 机构
  • 关键词

Phenoscape: Identifying Candidate Genes for Evolutionary Phenotypes

文献类型： 外文期刊

作者： Edmunds, Richard C. 1 ; Su, Baofeng 2 ; Balhoff, James P. 3 ; Eames, B. Frank 4 ; Dahdul, Wasila M. 3 ; Lapp, Hilma 1 ;

作者机构： 1.Univ Oregon, Inst Neurosci, Eugene, OR 97403 USA

2.Auburn Univ, Sch Fisheries Aquaculture & Aquat Sci, Auburn, AL 36849 USA

3.Natl Evolutionary Synth Ctr, Durham, NC USA

4.Univ Saskatchewan, Dept Anat & Cell Biol, Saskatoon, SK, Canada

5.Univ S Dakota, Dept Biol, Vermillion, SD 57069 USA

6.Acad Nat Sci, Dept Ichthyol, Philadelphia, PA USA

7.Univ N Carolina, Dept Biol, Chapel Hill, NC USA

8.NOAA, Natl Res Council Associate Program, NW Fisheries Sci Ctr, Natl Marine Fisheries Serv, Seattle, WA USA

9.Chinese Acad Fishery Sci, Heilongjiang Fisheries Res Inst, Key Lab Freshwater Aquat Biotechnol & Genet Breed, Minist Agr China, Harbin, Peoples R China

10.RTI Int, Res Triangle Pk, NC USA

11.Duke Univ, Ctr Genom & Computat

关键词： molecular evolution;gene expression;evolutionary phenotypes;catfish;nonmodel organism

期刊名称：MOLECULAR BIOLOGY AND EVOLUTION （ 影响因子：16.24； 五年影响因子：18.67 ）

ISSN：

年卷期：

页码：

收录情况： SCI

摘要： Phenotypes resulting from mutations in genetic model organisms can help reveal candidate genes for evolutionarily important phenotypic changes in related taxa. Although testing candidate gene hypotheses experimentally in nonmodel organisms is typically difficult, ontology-driven information systems can help generate testable hypotheses about developmental processes in experimentally tractable organisms. Here, we tested candidate gene hypotheses suggested by expert use of the Phenoscape Knowledgebase, specifically looking for genes that are candidates responsible for evolutionarily interesting phenotypes in the ostariophysan fishes that bear resemblance to mutant phenotypes in zebrafish. For this, we searched ZFIN for genetic perturbations that result in either loss of basihyal element or loss of scales phenotypes, because these are the ancestral phenotypes observed in catfishes (Siluriformes). We tested the identified candidate genes by examining their endogenous expression patterns in the channel catfish, Ictalurus punctatus. The experimental results were consistent with the hypotheses that these features evolved through disruption in developmental pathways at, or upstream of, brpf1 and eda/edar for the ancestral losses of basihyal element and scales, respectively. These results demonstrate that ontological annotations of the phenotypic effects of genetic alterations in model organisms, when aggregated within a knowledgebase, can be used effectively to generate testable, and useful, hypotheses about evolutionary changes in morphology.

  • 相关文献

[1]Spermatogonial stem cells specific marker identification in channel catfish, Ictalurus punctatus and blue catfish, I-furcatus. Shang, Mei,Su, Baofeng,Perera, Dayan A.,Li, Chao,Qin, Zhenkui,Li, Yun,Cek, Sehriban,Peatman, Eric,Dunham, Rex A.,Shang, Mei,Su, Baofeng,Lipke, Elizabeth A.,Dunn, David A.,Li, Chao,Cek, Sehriban.

[2]Pathogen recognition receptors in channel catfish: I. Identification, phylogeny and expression of NOD-like receptors. Rajendran, K. V.,Zhang, Jiaren,Liu, Shikai,Kucuktas, Huseyin,Wang, Xiuli,Liu, Hong,Sha, Zhenxia,Terhune, Jeffery,Peatman, Eric,Liu, Zhanjiang,Rajendran, K. V.,Zhang, Jiaren,Liu, Shikai,Kucuktas, Huseyin,Wang, Xiuli,Liu, Hong,Sha, Zhenxia,Terhune, Jeffery,Peatman, Eric,Liu, Zhanjiang,Rajendran, K. V.,Sha, Zhenxia.

[3]Expression profiling analysis of immune-related genes in channel catfish (Ictalurus punctatus) skin mucus following Flavobacterium columnare challenge. Ren, Yichao,Li, Chao,Zhao, Honggang,Peatman, Eric,Su, Baofeng.

[4]Structure and expression of transferrin gene of channel catfish, Ictalurus punctatus. Liu, Hong,Takano, Tomokazu,Abernathy, Jason,Wang, Shaolin,Sha, Zhenxia,Jiang, Yanliang,Terhune, Jeffery,Kucuktas, Huseyin,Peatman, Eric,Liu, Zhanjiang,Liu, Hong,Takano, Tomokazu,Abernathy, Jason,Wang, Shaolin,Sha, Zhenxia,Jiang, Yanliang,Terhune, Jeffery,Kucuktas, Huseyin,Peatman, Eric,Liu, Zhanjiang,Liu, Hong,Sha, Zhenxia. 2010

[5]The warm temperature acclimation protein Wap65 as an immune response gene: Its duplicates are differentially regulated by temperature and bacterial infections. Sha, Zhenxia,Yu, Peng,Takano, Tomokazu,Liu, Hong,Terhune, Jeffrey,Liu, Zhanjiang,Sha, Zhenxia,Liu, Hong. 2008

[6]NOD-like subfamily of the nucleotide-binding domain and leucine-rich repeat containing family receptors and their expression in channel catfish. Sha, Zhenxia,Abernathy, Jason W.,Wang, Shaolin,Li, Ping,Kucuktas, Huseyin,Liu, Hong,Peatman, Eric,Liu, Zhanjiang,Sha, Zhenxia.

[7]Expression profile analysis of two cathepsin S in channel catfish (Ictalurus punctatus) mucosal tissues following bacterial challenge. Dong, Xiaoyu,Song, Lin,Li, Chao,Ye, Zhi,Zhao, Honggang,Peatman, Eric,Su, Baofeng.

[8]Analysis of immune-relevant genes expressed in red sea bream (Chrysophrys major) spleen. Chen, SL,Xu, MY,Hu, SN,Li, L.

[9]Galectins in channel catfish, Ictalurus punctatus: Characterization and expression profiling in mucosal tissues. Zhou, Shun,Li, Chao,Zhao, Honggang,Thongda, Wilawan,Zhang, Dongdong,Peatman, Eric,Su, Baofeng,Yu, Dan.

[10]Identification and mucosal expression analysis of cathepsin B in channel catfish (Ictalurus punctatus) following bacterial challenge. Li, Chao,Song, Lin,Tan, Fenghua,Zhang, Dongdong,Zhao, Honggang,Peatman, Eric,Su, Baofeng.

[11]The two channel catfish intelectin genes exhibit highly differential patterns of tissue expression and regulation after infection with Edwardsiella ictaluri. Takano, Tomokazu,Sha, Zhenxia,Peatman, Eric,Terhune, Jeffery,Li, Hong,Kucuktas, Huseyin,Li, Ping,Liu, Zhanjiang,Sha, Zhenxia,Edholm, Eva-Stina,Wilson, Melanie.

[12]Mucosal expression signatures of two Cathepsin L in channel catfish (Ictalurus punctatus) following bacterial challenge. Wang, Renjie,Song, Lin,Li, Chao,Zhao, Honggang,Zhang, Dongdong,Peatman, Eric,Su, Baofeng.

[13]Functional characteristic and differential expression of myostatin in Chlamys nobilis. Zhu, Kecheng,Guo, Huayang,Zhang, Nan,Li, Yundong,Jiang, Shigui,Zhang, Dianchang. 2017

[14]Fasted and postprandial response of serum physiological response, hepatic antioxidant abilities and HSP70 expression in Wuchang bream (Megalobrama amblycephala) fed different dietary carbohydrate levels. Zhou, Chuanpeng,Ge, Xianping,Liu, Bo,Xie, Jun,Chen, Ruli,Zhou, Chuanpeng. 2014

[15]Molecular Cloning and Response to Water Temperature and Nutrient Manipulation of Insulin-like Growth Factor (IGF) Genes in Golden Pompano Trachinotus ovatus (Linnaeus 1758) Larvae. Ma, Zhenhua,Hu, Jing,Liu, Yajuan,Yang, Rui,Sun, Dianrong,Ma, Zhenhua,Sun, Dianrong,Ma, Zhenhua,Qin, Jian G.. 2016

[16]Physiological responses and gene expression changes in the western mosquitofish (Gambusia affinis) exposed to progesterone at environmentally relevant concentrations. Hou, Liping,Yang, Yang,Shu, Hu,Cheng, Xuemei,Xu, Hongyan,Ying, Guangguo,Zhao, Jianliang,Ying, Guangguo,Zhao, Jianliang. 2017

[17]Molecular characterization, expression and activity of glucokinase in golden pompano, Trachinotus ovatus: Response of its expression to carbohydrate in the diet. Zhou, Chuanpeng,Wang, Jun,Wang, Yun,Lin, Heizhao,Huang, Zhong,Yu, Wei. 2018

[18]Expression profiles of NODs in channel catfish (Ictalurus punctatus) after infection with Edwardsiella tarda, Aeromonas hydrophila, Streptococcus iniae and channel catfish hemorrhage reovirus. Li, Min,Wang, Qi-long,Lu, Yang,Chen, Song-lin,Sha, Zhen-xia,Li, Min,Li, Qi,Lu, Yang. 2012

[19]Identification of a cobia (Rachycentron canadum) CC chemokine gene and its involvement in the inflammatory response. Feng, Juan. 2012

[20]Identification and mRNA expression of antioxidant enzyme genes associated with the oxidative stress response in the Wuchang bream (Megalobrama amblycephala Yih) in response to acute nitrite exposure. Sun, Shengming,Ge, Xianping,Zhu, Jian,Xuan, Fujun,Jiang, Xiaojun. 2014

作者其他论文 更多>>
置顶
购物车
反馈

© 京ICP备09089781号-29 主办单位：中国水产科学研究院

学术资源： 中国农业科学院 农业专业知识服务系统 农科联盟资源共建共享平台 中国农业科技文献与信息服务平台 中国农业期刊集成服务平台