Comparative transcriptome analysis reveals conserved branching morphogenesis related genes involved in chamber formation of catfish swimbladder

Yujia Yang, Qiang Fu, Yang Liu, Xiaozhu Wang, Rex Dunham, Shikai Liu, Lisui Bao, Qifan Zeng, Tao Zhou, Ning Li, Zhenkui Qin, Chen Jiang, Dongya Gao, Zhanjian "John" Liu

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

The swimbladder is an internal gas-filled organ in teleosts. Its major function is to regulate buoyancy. The swimbladder exhibits great variation in size, shape, and number of compartments or chambers among teleosts. However, genomic control of swimbladder variation is unknown. Channel catfish (Ictalurus punctatus), blue catfish (Ictalurus furcatus), and their F1 hybrids of female channel catfish × male blue catfish (C × B hybrid catfish) provide a good model in which to investigate the swimbladder morphology, because channel catfish possess a single-chambered swimbladder, whereas blue catfish possess a bichambered swimbladder; C × B hybrid catfish possess a bichambered swimbladder but with a significantly reduced posterior chamber. Here we determined the transcriptional profiles of swimbladder from channel catfish, blue catfish, and C × B hybrid catfish. We examined their transcriptomes at both the fingerling and adult stages. Through comparative transcriptome analysis, ~4,000 differentially expressed genes (DEGs) were identified. Among these DEGs, members of the Wnt signaling pathway (wnt1, wnt2, nfatc1, rac2), Hedgehog signaling pathway (shh), and growth factors (fgf10, igf-1) were identified. As these genes were known to be important for branching morphogenesis of mammalian lung and of mammary glands, their association with budding of the posterior chamber primordium and progressive development of bichambered swimbladder in fish suggest that these branching morphogenesis-related genes and their functions in branching are evolutionarily conserved across a broad spectrum of species.

Original languageEnglish (US)
Pages (from-to)67-76
Number of pages10
JournalPhysiological Genomics
Volume50
Issue number1
DOIs
StatePublished - Jan 1 2018

Fingerprint

Air Sacs
Catfishes
Gene Expression Profiling
Morphogenesis
Ictaluridae
Genes
Wnt Signaling Pathway
Hedgehogs
Human Mammary Glands
Transcriptome
Intercellular Signaling Peptides and Proteins
Fishes
Gases

Keywords

  • Branching morphogenesis
  • Catfish
  • Fish
  • Swimbladder
  • Transcriptome

ASJC Scopus subject areas

  • Physiology
  • Genetics

Cite this

Comparative transcriptome analysis reveals conserved branching morphogenesis related genes involved in chamber formation of catfish swimbladder. / Yang, Yujia; Fu, Qiang; Liu, Yang; Wang, Xiaozhu; Dunham, Rex; Liu, Shikai; Bao, Lisui; Zeng, Qifan; Zhou, Tao; Li, Ning; Qin, Zhenkui; Jiang, Chen; Gao, Dongya; Liu, Zhanjian "John".

In: Physiological Genomics, Vol. 50, No. 1, 01.01.2018, p. 67-76.

Research output: Contribution to journalArticle

Yang, Yujia ; Fu, Qiang ; Liu, Yang ; Wang, Xiaozhu ; Dunham, Rex ; Liu, Shikai ; Bao, Lisui ; Zeng, Qifan ; Zhou, Tao ; Li, Ning ; Qin, Zhenkui ; Jiang, Chen ; Gao, Dongya ; Liu, Zhanjian "John". / Comparative transcriptome analysis reveals conserved branching morphogenesis related genes involved in chamber formation of catfish swimbladder. In: Physiological Genomics. 2018 ; Vol. 50, No. 1. pp. 67-76.
@article{ca2ae3b409cf4be196feaa1349a2e562,
title = "Comparative transcriptome analysis reveals conserved branching morphogenesis related genes involved in chamber formation of catfish swimbladder",
abstract = "The swimbladder is an internal gas-filled organ in teleosts. Its major function is to regulate buoyancy. The swimbladder exhibits great variation in size, shape, and number of compartments or chambers among teleosts. However, genomic control of swimbladder variation is unknown. Channel catfish (Ictalurus punctatus), blue catfish (Ictalurus furcatus), and their F1 hybrids of female channel catfish × male blue catfish (C × B hybrid catfish) provide a good model in which to investigate the swimbladder morphology, because channel catfish possess a single-chambered swimbladder, whereas blue catfish possess a bichambered swimbladder; C × B hybrid catfish possess a bichambered swimbladder but with a significantly reduced posterior chamber. Here we determined the transcriptional profiles of swimbladder from channel catfish, blue catfish, and C × B hybrid catfish. We examined their transcriptomes at both the fingerling and adult stages. Through comparative transcriptome analysis, ~4,000 differentially expressed genes (DEGs) were identified. Among these DEGs, members of the Wnt signaling pathway (wnt1, wnt2, nfatc1, rac2), Hedgehog signaling pathway (shh), and growth factors (fgf10, igf-1) were identified. As these genes were known to be important for branching morphogenesis of mammalian lung and of mammary glands, their association with budding of the posterior chamber primordium and progressive development of bichambered swimbladder in fish suggest that these branching morphogenesis-related genes and their functions in branching are evolutionarily conserved across a broad spectrum of species.",
keywords = "Branching morphogenesis, Catfish, Fish, Swimbladder, Transcriptome",
author = "Yujia Yang and Qiang Fu and Yang Liu and Xiaozhu Wang and Rex Dunham and Shikai Liu and Lisui Bao and Qifan Zeng and Tao Zhou and Ning Li and Zhenkui Qin and Chen Jiang and Dongya Gao and Liu, {Zhanjian {"}John{"}}",
year = "2018",
month = "1",
day = "1",
doi = "10.1152/physiolgenomics.00089.2017",
language = "English (US)",
volume = "50",
pages = "67--76",
journal = "Physiological Genomics",
issn = "1094-8341",
publisher = "American Physiological Society",
number = "1",

}

TY - JOUR

T1 - Comparative transcriptome analysis reveals conserved branching morphogenesis related genes involved in chamber formation of catfish swimbladder

AU - Yang, Yujia

AU - Fu, Qiang

AU - Liu, Yang

AU - Wang, Xiaozhu

AU - Dunham, Rex

AU - Liu, Shikai

AU - Bao, Lisui

AU - Zeng, Qifan

AU - Zhou, Tao

AU - Li, Ning

AU - Qin, Zhenkui

AU - Jiang, Chen

AU - Gao, Dongya

AU - Liu, Zhanjian "John"

PY - 2018/1/1

Y1 - 2018/1/1

N2 - The swimbladder is an internal gas-filled organ in teleosts. Its major function is to regulate buoyancy. The swimbladder exhibits great variation in size, shape, and number of compartments or chambers among teleosts. However, genomic control of swimbladder variation is unknown. Channel catfish (Ictalurus punctatus), blue catfish (Ictalurus furcatus), and their F1 hybrids of female channel catfish × male blue catfish (C × B hybrid catfish) provide a good model in which to investigate the swimbladder morphology, because channel catfish possess a single-chambered swimbladder, whereas blue catfish possess a bichambered swimbladder; C × B hybrid catfish possess a bichambered swimbladder but with a significantly reduced posterior chamber. Here we determined the transcriptional profiles of swimbladder from channel catfish, blue catfish, and C × B hybrid catfish. We examined their transcriptomes at both the fingerling and adult stages. Through comparative transcriptome analysis, ~4,000 differentially expressed genes (DEGs) were identified. Among these DEGs, members of the Wnt signaling pathway (wnt1, wnt2, nfatc1, rac2), Hedgehog signaling pathway (shh), and growth factors (fgf10, igf-1) were identified. As these genes were known to be important for branching morphogenesis of mammalian lung and of mammary glands, their association with budding of the posterior chamber primordium and progressive development of bichambered swimbladder in fish suggest that these branching morphogenesis-related genes and their functions in branching are evolutionarily conserved across a broad spectrum of species.

AB - The swimbladder is an internal gas-filled organ in teleosts. Its major function is to regulate buoyancy. The swimbladder exhibits great variation in size, shape, and number of compartments or chambers among teleosts. However, genomic control of swimbladder variation is unknown. Channel catfish (Ictalurus punctatus), blue catfish (Ictalurus furcatus), and their F1 hybrids of female channel catfish × male blue catfish (C × B hybrid catfish) provide a good model in which to investigate the swimbladder morphology, because channel catfish possess a single-chambered swimbladder, whereas blue catfish possess a bichambered swimbladder; C × B hybrid catfish possess a bichambered swimbladder but with a significantly reduced posterior chamber. Here we determined the transcriptional profiles of swimbladder from channel catfish, blue catfish, and C × B hybrid catfish. We examined their transcriptomes at both the fingerling and adult stages. Through comparative transcriptome analysis, ~4,000 differentially expressed genes (DEGs) were identified. Among these DEGs, members of the Wnt signaling pathway (wnt1, wnt2, nfatc1, rac2), Hedgehog signaling pathway (shh), and growth factors (fgf10, igf-1) were identified. As these genes were known to be important for branching morphogenesis of mammalian lung and of mammary glands, their association with budding of the posterior chamber primordium and progressive development of bichambered swimbladder in fish suggest that these branching morphogenesis-related genes and their functions in branching are evolutionarily conserved across a broad spectrum of species.

KW - Branching morphogenesis

KW - Catfish

KW - Fish

KW - Swimbladder

KW - Transcriptome

UR - http://www.scopus.com/inward/record.url?scp=85043458431&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85043458431&partnerID=8YFLogxK

U2 - 10.1152/physiolgenomics.00089.2017

DO - 10.1152/physiolgenomics.00089.2017

M3 - Article

VL - 50

SP - 67

EP - 76

JO - Physiological Genomics

JF - Physiological Genomics

SN - 1094-8341

IS - 1

ER -