ArticleNature communications2016
The channel catfish genome sequence provides insights into the evolution of scale formation in teleosts.
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Article in Nature communications, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 146 papers.
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146 citing papers in PubMed, 308 citations in OpenAlex.
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- SCPP Gene Repertoires in Teleosts and Evolutionary Changes in Bone, Teeth, and Scales.Genome biology and evolution · 2026Article
- A genomic compendium of hundreds of teleost fishes reveals their evolutionary landscape.Innovation (Cambridge (Mass.)) · 2026Article
- Nano-Selenium supplementation Improves Meat Quality, Protein Deposition, and Selenoprotein Gene Expression in Channel Catfish (Ictalurus Punctatus).Biological trace element research · 2026Article
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- Tissue Mosaicism in Xenogenic Common Carp (Cyprinus carpio) Injected with Unsorted Gonadal Cells from Blue Catfish (Ictalurus furcatus).Marine biotechnology (New York, N.Y.) · 2025Article
- Chromosome-scale, haplotype-resolved genome of Bighead catfish for conservation and aquaculture.Scientific data · 2025Article
- Current State of Fish Reference Genome and Pangenome: Methodologies, Sampling Strategies, Quality Assessment and Future Perspectives to Aquaculture Breeding.Marine biotechnology (New York, N.Y.) · 2025Review
- A chromosome-level genome assembly of Electrophorus voltai, a species of electric eel.Scientific data · 2025Article
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- Chromosome-level genome assembly reveals adaptive evolution of the invasive Amazon sailfin catfish (Pterygoplichthys pardalis).Communications biology · 2025Article
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- Chromosome-level genome assembly of black carp Mylopharyngodon piceus using Nanopore and Hi-C technologies.Scientific data · 2025Article
- Hydin as the Candidate Master Sex Determination Gene in Channel Catfish (Ictalurus punctatus) and Its Epigenetic Regulation.Marine biotechnology (New York, N.Y.) · 2024Review
- Decoding the fish genome opens a new era in important trait research and molecular breeding in China.Science China. Life sciences · 2024Review
- A high-quality chromosome-level genome assembly of the topmouth culter (Culter alburnus Basilewsky, 1855).Scientific data · 2024Article
- Genetic Diversity and Population Structure ofInternational journal of molecular sciences · 2024Article
- slc26a12-A novel member of the slc26 family, is located in tandem with slc26a2 in coelacanths, amphibians, reptiles, and birds.Physiological reports · 2024Article
- Pan-evolutionary and regulatory genome architecture delineated by an integrated macro- and microsynteny approach.Nature protocols · 2024Review
86 more citing papers are in PubMed but not listed here.
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Authors and funding
52 authors at 5 institutions in 2 countries.
Zhanjiang LiuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Shikai LiuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Jun YaoThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Lisui BaoThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Jiaren ZhangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Yun LiThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Chen JiangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Luyang SunThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Ruijia WangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Yu ZhangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Tao ZhouThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Qifan ZengThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Qiang FuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Sen GaoThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Ning LiThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Sergey KorenNational Center for Biodefense Analysis and Countermeasures Center, 110 Thomas Johnson Drive, Frederick, Maryland 21702, USA.
Yanliang JiangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Aleksey ZiminInstitute for Physical Science and Technology, University of Maryland, College Park, Maryland 20742, USA.
Peng XuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Adam M PhillippyNational Center for Biodefense Analysis and Countermeasures Center, 110 Thomas Johnson Drive, Frederick, Maryland 21702, USA.
Xin GengThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Lin SongThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Fanyue SunThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Chao LiThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Xiaozhu WangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Ailu ChenThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Yulin JinThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Zihao YuanThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Yujia YangThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Suxu TanThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Eric PeatmanThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Jianguo LuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Zhenkui QinThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Rex DunhamThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Zhaoxia LiThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Tad SonstegardBovine Functional Genomics Laboratory, United States Department of Agriculture, Agricultural Research Service, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA.
Jianbin FengThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Roy G DanzmannDepartment of Integrative Biology, University of Guelph, Guelph, Ontario, Canada N1G 2W1.
Steven SchroederBovine Functional Genomics Laboratory, United States Department of Agriculture, Agricultural Research Service, 10300 Baltimore Avenue, Beltsville, Maryland 20705, USA.
Brian SchefflerUSDA, ARS, Genomics and Bioinformatics Research Unit, P.O. Box 38, Stoneville, Mississippi 38776, USA.
Mary V DukeUSDA, ARS, Genomics and Bioinformatics Research Unit, P.O. Box 38, Stoneville, Mississippi 38776, USA.
Linda BallardUSDA, ARS, Genomics and Bioinformatics Research Unit, P.O. Box 38, Stoneville, Mississippi 38776, USA.
Huseyin KucuktasThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Ludmilla KaltenboeckThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Haixia LiuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Jonathan ArmbrusterDepartment of Biological Sciences, Auburn University, Auburn, Alabama 36849, USA.
Yangjie XieThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Mona L KirbyUSDA-ARS Warmwater Aquaculture Research Unit, P.O. Box 38, 141 Experiment Station Road, Stoneville, Mississippi 38776, USA.
Yi TianThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Mary Elizabeth FlanaganUSDA-ARS Warmwater Aquaculture Research Unit, P.O. Box 38, 141 Experiment Station Road, Stoneville, Mississippi 38776, USA.
Weijie MuThe Fish Molecular Genetics and Biotechnology Laboratory, School of Fisheries, Aquaculture, and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, Alabama 36849, USA.
Geoffrey C WaldbieserUSDA-ARS Warmwater Aquaculture Research Unit, P.O. Box 38, 141 Experiment Station Road, Stoneville, Mississippi 38776, USA.
Auburn University · USAgricultural Research Service · USUnited States Department of Agriculture · USUniversity of Guelph · CAUniversity of Maryland, College Park · US
Funding
Single-molecule sequence assembly and analysisZIAHG200398 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI PHILLIPPY, ADAM · 2016 to 2025
$15.9MAbstract
Catfish represent 12% of teleost or 6.3% of all vertebrate species, and are of enormous economic value. Here we report a high-quality reference genome sequence of channel catfish (Ictalurus punctatus), the major aquaculture species in the US. The reference genome sequence was validated by genetic mapping of 54,000 SNPs, and annotated with 26,661 predicted protein-coding genes. Through comparative analysis of genomes and transcriptomes of scaled and scaleless fish and scale regeneration experiments, we address the genomic basis for the most striking physical characteristic of catfish, the evolutionary loss of scales and provide evidence that lack of secretory calcium-binding phosphoproteins accounts for the evolutionary loss of scales in catfish. The channel catfish reference genome sequence, along with two additional genome sequences and transcriptomes of scaled catfishes, provide crucial resources for evolutionary and biological studies. This work also demonstrates the power of comparative subtraction of candidate genes for traits of structural significance.
Indexed as
Biological EvolutionGenomePhylogenyAnimalsAnimal ScalesBase SequenceCalcium-Binding ProteinsChromosome MappingFish ProteinsGene Expression RegulationGene OntologyIctaluridaeMolecular Sequence AnnotationOpen Reading FramesPhosphoproteinsPolymorphism, Single NucleotideCalcium-Binding ProteinsFish ProteinsPhosphoproteins
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