Evidence map›Paper›PMID 33113010›Full record

ArticleMarine biotechnology (New York, N.Y.)2021

Comparative Genomic and Transcriptomic Analyses Revealed Twenty-Six Candidate Genes Involved in the Air-Breathing Development and Function of the Bighead Catfish Clarias macrocephalus.

Xiaoli Ma, Baofeng Su, Max Bangs, Veronica Alston, Nathan J C Backenstose, Rhoda Mae Simora, Wenwen Wang, De Xing, Shangjia Li, Zhi Ye and 4 more

Abstract readComparative Study
PubMed Publisher
In one paragraph

Article in Marine biotechnology (New York, N.Y.), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.8field-weighted citation impact, top 26% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed, 8 citations in OpenAlex.

  1. Article
  2. Review
  3. Fibronectin 1B Gene Plays an Important Role in Loach Barbel Air-Breathing.International journal of molecular sciences · 2021
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

14 authors at 5 institutions in 3 countries.

Xiaoli MaSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Baofeng SuSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Max BangsSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Veronica AlstonSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Nathan J C BackenstoseSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Rhoda Mae SimoraSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Wenwen WangSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
De XingSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Shangjia LiSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Zhi YeSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA.
Anthony G MossAlabama Agricultural Experiment Station, Auburn, AL, 36849, USA.
Thuy-Yen DuongCollege of Aquaculture and Fisheries, Can Tho University, Can Tho City, 94000, Vietnam.
Xu WangAlabama Agricultural Experiment Station, Auburn, AL, 36849, USA. xzw0070@auburn.edu.ORCID https://orcid.org/0000-0002-7594-5004
Rex A DunhamSchool of Fisheries, Aquaculture and Aquatic Sciences, Auburn University, Auburn, AL, 36849, USA. dunhara@auburn.edu.
Arkansas Agricultural Experiment Station · USCan Tho University · VNFlorida State University · USUniversity of the Philippines Visayas · PHUniversity of Washington · US

Funding

National Science Foundation NSF-OIA-1928770USDA National Institute of Food and Agriculture Hatch project 1018100
6 · The paper itself

Abstract

The bighead catfish (Clarias macrocephalus) and channel catfish (Ictalurus punctatus) are freshwater species in the Siluriformes order. C. macrocephalus has both gills and modified gill structures serving as an air-breathing organ (ABO), while I. punctatus does not possess such an organ, and cannot breathe in air, providing an excellent model for studying the molecular basis of ABO development in teleost fish. To investigate the critical time window for the development of air-breathing function, seven development stages were selected based on hypoxia challenge results, and RNA-seq was performed upon C. macrocephalus to compare with the non-air-breathing I. punctatus. Five-hundred million reads were generated and 25,239 expressed genes were annotated in C. macrocephalus. Among those, 8675 genes were differentially expressed across developmental stages. Comparative genomic analysis identified 1458 C. macrocephalus specific genes, which were absent in I. punctatus. Gene network and protein-protein interaction analyses identified 26 key hub genes involved in the air-breathing function. Three top candidate genes, mb, ngb, hbae, are mainly associated with oxygen carrying, oxygen binding, and heme binding activities. Our study provides a rich data set for exploring the genomic basis of air-breathing function in C. macrocephalus and offers insights into the adaption to hypoxic environments.

Indexed as

Adaptation, PhysiologicalAnimalsCatfishesGene Expression ProfilingGenomicsGillsHypoxiaOxygenRespirationSequence Analysis, RNAOxygenAir-breathing catfishClarias macrocephalusOxygen bindingOxygen transportTranscriptome analysis

Identifiers

PMID33113010
OpenAlexW3094936902

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.