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  • Zhanjian "John" Liu
2020

Genomic Prediction of Columnaris Disease Resistance in Catfish

Zhang, Y., Liu, Z. & Li, H., Feb 1 2020, In : Marine Biotechnology. 22, 1, p. 145-151 7 p.

Research output: Contribution to journalArticle

1 Scopus citations
2019

Consumption of florfenicol-medicated feed alters the composition of the channel catfish intestinal microbiota including enriching the relative abundance of opportunistic pathogens

Wang, E., Yuan, Z., Wang, K., Gao, D., Liu, Z. J. & Liles, M. R., Feb 25 2019, In : Aquaculture. 501, p. 111-118 8 p.

Research output: Contribution to journalArticle

7 Scopus citations

FOXO genes in channel catfish and their response after bacterial infection

Gao, L., Yuan, Z., Zhou, T., Yang, Y., Gao, D., Dunham, R. & Liu, Z., Aug 2019, In : Developmental and Comparative Immunology. 97, p. 38-44 7 p.

Research output: Contribution to journalArticle

2 Scopus citations

Genome to phenome: Improving animal health, production, and well-being - A new USDA blueprint for animal genome research 2018-2027

Agricultural Animal Genomics Community, 2019, In : Frontiers in Genetics. 10, MAY, 327.

Research output: Contribution to journalReview article

Open Access
10 Scopus citations

GWAS Analysis Indicated Importance of NF-κB Signaling Pathway in Host Resistance Against Motile Aeromonas Septicemia Disease in Catfish

Wang, W., Tan, S., Luo, J., Shi, H., Zhou, T., Yang, Y., Jin, Y., Wang, X., Niu, D., Yuan, Z., Gao, D., Dunham, R. & Liu, Z. J., Jan 1 2019, In : Marine Biotechnology.

Research output: Contribution to journalArticle

10 Scopus citations

Heat stress induced alternative splicing in catfish as determined by transcriptome analysis

Tan, S., Wang, W., Tian, C., Niu, D., Zhou, T., Jin, Y., Yang, Y., Gao, D., Dunham, R. & Liu, Z., Mar 2019, In : Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 29, p. 166-172 7 p.

Research output: Contribution to journalArticle

6 Scopus citations

Penaeid shrimp genome provides insights into benthic adaptation and frequent molting

Zhang, X., Yuan, J., Sun, Y., Li, S., Gao, Y., Yu, Y., Liu, C., Wang, Q., Lv, X., Zhang, X., Ma, K. Y., Wang, X., Lin, W., Wang, L., Zhu, X., Zhang, C., Zhang, J., Jin, S., Yu, K., Kong, J. & 13 others, Xu, P., Chen, J., Zhang, H., Sorgeloos, P., Sagi, A., Alcivar-Warren, A., Liu, Z., Wang, L., Ruan, J., Chu, K. H., Liu, B., Li, F. & Xiang, J., Dec 1 2019, In : Nature Communications. 10, 1, 356.

Research output: Contribution to journalArticle

Open Access
58 Scopus citations

Polyadenylation sites and their characteristics in the genome of channel catfish (Ictalurus punctatus) as revealed by using RNA-Seq data

Tan, S., Wang, W., Zhou, T., Yang, Y., Gao, D., Dunham, R. & Liu, Z., Jun 2019, In : Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 30, p. 248-255 8 p.

Research output: Contribution to journalArticle

Post-transcriptional regulation through alternative splicing after infection with Flavobacterium columnare in channel catfish (Ictalurus punctatus)

Tan, S., Wang, W., Tian, C., Niu, D., Zhou, T., Yang, Y., Gao, D. & Liu, Z., Aug 2019, In : Fish and Shellfish Immunology. 91, p. 188-193 6 p.

Research output: Contribution to journalArticle

3 Scopus citations

The state of aquaculture genomics

Yao, J., Zhang, J. & Liu, Z., Jan 1 2019, Comprehensive Biotechnology. Elsevier, p. 376-389 14 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

The Y chromosome sequence of the channel catfish suggests novel sex determination mechanisms in teleost fish

Bao, L., Tian, C., Liu, S., Zhang, Y., Elaswad, A., Yuan, Z., Khalil, K., Sun, F., Yang, Y., Zhou, T., Li, N., Tan, S., Zeng, Q., Liu, Y., Li, Y., Li, Y., Gao, D., Dunham, R., Davis, K., Waldbieser, G. & 1 others, Liu, Z., Jan 25 2019, In : BMC Biology. 17, 1, 6.

Research output: Contribution to journalArticle

9 Scopus citations
2018

A review of molecular responses of catfish to bacterial diseases and abiotic stresses

Zhou, T., Yuan, Z., Tan, S., Jin, Y., Yang, Y., Shi, H., Wang, W., Niu, D., Gao, L., Jiang, W., Gao, D. & Liu, Z. J., Aug 23 2018, In : Frontiers in Physiology. 9, AUG, 1113.

Research output: Contribution to journalReview article

3 Scopus citations

Chemokine C-C motif ligand 33 is a key regulator of teleost fish barbel development

Zhou, T., Li, N., Jin, Y., Zeng, Q., Prabowo, W., Liu, Y., Tian, C., Bao, L., Liu, S., Yuan, Z., Fu, Q., Gao, S., Gao, D., Dunham, R., Shubin, N. H. & Liu, Z. J., May 29 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 22, p. E5018-E5027

Research output: Contribution to journalArticle

8 Scopus citations

Comparative genome analysis of 52 fish species suggests differential associations of repetitive elements with their living aquatic environments

Yuan, Z., Liu, S., Zhou, T., Tian, C., Bao, L., Dunham, R. & Liu, Z., Feb 13 2018, In : BMC Genomics. 19, 1, 141.

Research output: Contribution to journalArticle

14 Scopus citations

Comparative transcriptome analysis of the swimbladder reveals expression signatures in response to low oxygen stress in channel catfish, ictalurus punctatus

Yang, Y., Fu, Q., Wang, X., Liu, Y., Zeng, Q., Li, Y., Gao, S., Bao, L., Liu, S., Gao, D., Dunham, R. & Liu, Z. J., Aug 21 2018, In : Physiological Genomics. 50, 8, p. 636-647 12 p.

Research output: Contribution to journalArticle

2 Scopus citations

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

Yang, Y., Fu, Q., Liu, Y., Wang, X., Dunham, R., Liu, S., Bao, L., Zeng, Q., Zhou, T., Li, N., Qin, Z., Jiang, C., Gao, D. & Liu, Z., Jan 2018, In : Physiological Genomics. 50, 1, p. 67-76 10 p.

Research output: Contribution to journalArticle

3 Scopus citations

Effects of CRISPR/Cas9 dosage on TICAM1 and RBL gene mutation rate, embryonic development, hatchability and fry survival in channel catfish

Elaswad, A., Khalil, K., Ye, Z., Liu, Z., Liu, S., Peatman, E., Odin, R., Vo, K., Drescher, D., Gosh, K., Qin, G., Bugg, W., Backenstose, N. & Dunham, R., Dec 1 2018, In : Scientific reports. 8, 1, 16499.

Research output: Contribution to journalArticle

3 Scopus citations

Genome sequence of walking catfish (Clarias batrachus) provides insights into terrestrial adaptation

Li, N., Bao, L., Zhou, T., Yuan, Z., Liu, S., Dunham, R., Li, Y., Wang, K., Xu, X., Jin, Y., Zeng, Q., Gao, S., Fu, Q., Liu, Y., Yang, Y., Li, Q., Meyer, A., Gao, D. & Liu, Z., Dec 20 2018, In : BMC Genomics. 19, 1, 952.

Research output: Contribution to journalArticle

4 Scopus citations

Genome-wide association analysis of intra-specific QTL associated with the resistance for enteric septicemia of catfish

Shi, H., Zhou, T., Wang, X., Yang, Y., Wu, C., Liu, S., Bao, L., Li, N., Yuan, Z., Jin, Y., Tan, S., Wang, W., Zhong, X., Qin, G., Geng, X., Gao, D., Dunham, R. & Liu, Z. J., Jul 2 2018, (Accepted/In press) In : Molecular Genetics and Genomics. p. 1-14 14 p.

Research output: Contribution to journalArticle

7 Scopus citations

GWAS analysis using interspecific backcross progenies reveals superior blue catfish alleles responsible for strong resistance against enteric septicemia of catfish

Tan, S., Zhou, T., Wang, W., Jin, Y., Wang, X., Geng, X., Luo, J., Yuan, Z., Yang, Y., Shi, H., Gao, D., Dunham, R. & Liu, Z. J., May 8 2018, (Accepted/In press) In : Molecular Genetics and Genomics. p. 1-14 14 p.

Research output: Contribution to journalArticle

6 Scopus citations

Historical demography of common carp estimated from individuals collected from various parts of the world using the pairwise sequentially markovian coalescent approach

Yuan, Z., Huang, W., Liu, S., Xu, P., Dunham, R. & Liu, Z. J., Jan 3 2018, (Accepted/In press) In : Genetica. p. 1-7 7 p.

Research output: Contribution to journalArticle

1 Scopus citations

Increased Alternative Splicing as a Host Response to Edwardsiella ictaluri Infection in Catfish

Tan, S., Wang, W., Zhong, X., Tian, C., Niu, D., Bao, L., Zhou, T., Jin, Y., Yang, Y., Yuan, Z., Gao, D., Dunham, R. & Liu, Z. J., Jul 16 2018, (Accepted/In press) In : Marine Biotechnology. p. 1-10 10 p.

Research output: Contribution to journalArticle

8 Scopus citations

JAK and STAT members in channel catfish: Identification, phylogenetic analysis and expression profiling after Edwardsiella ictaluri infection

Jin, Y., Zhou, T., Li, N., Liu, S., Xu, X., Pan, Y., Tan, S., Shi, H., Yang, Y., Yuan, Z., Wang, W., Luo, J., Gao, D., Dunham, R. & Liu, Z. J., Apr 1 2018, In : Developmental and Comparative Immunology. 81, p. 334-341 8 p.

Research output: Contribution to journalArticle

7 Scopus citations

The annotation of repetitive elements in the genome of channel catfish (Ictalurus punctatus)

Yuan, Z., Zhou, T., Bao, L., Liu, S., Shi, H., Yang, Y., Gao, D., Dunham, R., Waldbieser, G. & Liu, Z., May 2018, In : PloS one. 13, 5, e0197371.

Research output: Contribution to journalArticle

2 Scopus citations

Transcriptome analysis reveals enrichment of genes associated with auditory system in swimbladder of channel catfish

Yang, Y., Wang, X., Liu, Y., Fu, Q., Tian, C., Wu, C., Shi, H., Yuan, Z., Tan, S., Liu, S., Gao, D., Dunham, R. & Liu, Z. J., Sep 1 2018, In : Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 27, p. 30-39 10 p.

Research output: Contribution to journalArticle

3 Scopus citations
2017

A deletion in the Hermansky–Pudlak syndrome 4 (Hps4) gene appears to be responsible for albinism in channel catfish

Li, Y., Geng, X., Bao, L., Elaswad, A., Huggins, K. W., Dunham, R. & Liu, Z. J., Jun 1 2017, In : Molecular Genetics and Genomics. 292, 3, p. 663-670 8 p.

Research output: Contribution to journalArticle

12 Scopus citations

A genome-wide association study of heat stress-associated SNPs in catfish

Jin, Y., Zhou, T., Geng, X., Liu, S., Chen, A., Yao, J., Jiang, C., Tan, S., Su, B. & Liu, Z. J., Apr 1 2017, In : Animal Genetics. 48, 2, p. 233-236 4 p.

Research output: Contribution to journalArticle

32 Scopus citations

A Genome-Wide Association Study Reveals That Genes with Functions for Bone Development Are Associated with Body Conformation in Catfish

Geng, X., Liu, S., Yuan, Z., Jiang, Y., Zhi, D. & Liu, Z. J., Dec 1 2017, In : Marine Biotechnology. 19, 6, p. 570-578 9 p.

Research output: Contribution to journalArticle

24 Scopus citations

Analysis of apolipoprotein genes and their involvement in disease response of channel catfish after bacterial infection

Yang, Y., Fu, Q., Zhou, T., Li, Y., Liu, S., Zeng, Q., Wang, X., Jin, Y., Tian, C., Qin, Z., Dunham, R. & Liu, Z. J., Feb 1 2017, In : Developmental and Comparative Immunology. 67, p. 464-470 7 p.

Research output: Contribution to journalArticle

13 Scopus citations

Aquaculture genomics, genetics and breeding in the United States: Current status, challenges, and priorities for future research

The Aquaculture Genomics, Genetics and Breeding Workshop, Hisham Abdelrahmaßn, Feb 20 2017, In : BMC Genomics. 18, 1, 191.

Research output: Contribution to journalArticle

57 Scopus citations

Development of a 690 K SNP array in catfish and its application for genetic mapping and validation of the reference genome sequence

Zeng, Q., Fu, Q., Li, Y., Waldbieser, G., Bosworth, B., Liu, S., Yang, Y., Bao, L., Yuan, Z., Li, N. & Liu, Z. J., Jan 12 2017, In : Scientific Reports. 7, 40347.

Research output: Contribution to journalArticle

21 Scopus citations

DExD/H-box RNA helicase genes are differentially expressed between males and females during the critical period of male sex differentiation in channel catfish

Tian, C., Tan, S., Bao, L., Zeng, Q., Liu, S., Yang, Y., Zhong, X. & Liu, Z., Jun 1 2017, In : Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 22, p. 109-119 11 p.

Research output: Contribution to journalArticle

6 Scopus citations

Effects of strain and body weight on low-oxygen tolerance of channel catfish (Ictalurus punctatus)

Wang, X., Liu, S., Dunham, R. & Liu, Z. J., Aug 1 2017, In : Aquaculture International. 25, 4, p. 1645-1652 8 p.

Research output: Contribution to journalArticle

2 Scopus citations

Erratum to: Aquaculture genomics, genetics and breeding in the United States: Current status, challenges, and priorities for future research. [BMC Genomics. 18, (2017), (191)] DOI: 10.1186/s12864-017-3557-1

The Aquaculture Genomics, Genetics and Breeding Workshop, Mar 16 2017, In : BMC Genomics. 18, 1, 235.

Research output: Contribution to journalComment/debate

1 Scopus citations

Genome-Wide Association Study Reveals Multiple Novel QTL Associated with Low Oxygen Tolerance in Hybrid Catfish

Zhong, X., Wang, X., Zhou, T., Jin, Y., Tan, S., Jiang, C., Geng, X., Li, N., Shi, H., Zeng, Q., Yang, Y., Yuan, Z., Bao, L., Liu, S., Tian, C., Peatman, E., Li, Q. & Liu, Z. J., Aug 1 2017, In : Marine Biotechnology. 19, 4, p. 379-390 12 p.

Research output: Contribution to journalArticle

32 Scopus citations

Genomic basis of adaptive evolution: The survival of amur ide (leuciscus waleckii) in an extremely alkaline environment

Xu, J., Li, J. T., Jiang, Y., Peng, W., Yao, Z., Chen, B., Jiang, L., Feng, J., Ji, P., Liu, G., Liu, Z. J., Tai, R., Dong, C., Sun, X., Zhao, Z. X., Zhang, Y., Wang, J., Li, S., Zhao, Y., Yang, J. & 2 others, Sun, X. & Xu, P., 2017, In : Molecular Biology and Evolution. 34, 1, p. 145-159 15 p.

Research output: Contribution to journalArticle

21 Scopus citations

Genomic organization and evolution of olfactory receptors and trace amine-associated receptors in channel catfish, Ictalurus punctatus

Gao, S., Liu, S., Yao, J., Li, N., Yuan, Z., Zhou, T., Li, Q. & Liu, Z. J., Mar 1 2017, In : Biochimica et Biophysica Acta - General Subjects. 1861, 3, p. 644-651 8 p.

Research output: Contribution to journalArticle

6 Scopus citations

GWAS analysis of QTL for enteric septicemia of catfish and their involved genes suggest evolutionary conservation of a molecular mechanism of disease resistance

Zhou, T., Liu, S., Geng, X., Jin, Y., Jiang, C., Bao, L., Yao, J., Zhang, Y., Zhang, J., Sun, L., Wang, X., Li, N., Tan, S. & Liu, Z. J., Feb 1 2017, In : Molecular Genetics and Genomics. 292, 1, p. 231-242 12 p.

Research output: Contribution to journalArticle

27 Scopus citations

Identification, annotation and expression analysis of 29 Rho GTPase genes from channel catfish (Ictalurus punctatus) after bacterial infections

Tan, S., Yao, J., Zhou, T., Liu, S., Yuan, Z., Tian, C., Li, Q. & Liu, Z. J., Feb 1 2017, In : Developmental and Comparative Immunology. 67, p. 445-451 7 p.

Research output: Contribution to journalArticle

6 Scopus citations

Identification of NF-κB related genes in channel catfish and their expression profiles in mucosal tissues after columnaris bacterial infection

Wang, X., Liu, S., Yang, Y., Fu, Q., Abebe, A. & Liu, Z. J., May 1 2017, In : Developmental and Comparative Immunology. 70, p. 27-38 12 p.

Research output: Contribution to journalArticle

8 Scopus citations

Identification of novel genes significantly affecting growth in catfish through GWAS analysis

Li, N., Zhou, T., Geng, X., Jin, Y., Wang, X., Liu, S., Xu, X., Gao, D., Li, Q. & Liu, Z. J., Dec 12 2017, (Accepted/In press) In : Molecular Genetics and Genomics. p. 1-13 13 p.

Research output: Contribution to journalArticle

21 Scopus citations

Large-scale SNP discovery and construction of a high-density genetic map of Colossoma macropomum through genotyping-by-sequencing

Da Silva Nunes, J. D. R., Liu, S., Pértille, F., Perazza, C. A., Villela, P. M. S., De Almeida-Val, V. M. F., Hilsdorf, A. W. S., Liu, Z. J. & Coutinho, L. L., Apr 7 2017, In : Scientific Reports. 7, 46112.

Research output: Contribution to journalArticle

10 Scopus citations

Multiple across-strain and within-strain QTLs suggest highly complex genetic architecture for hypoxia tolerance in channel catfish

Wang, X., Liu, S., Jiang, C., Geng, X., Zhou, T., Li, N., Bao, L., Li, Y., Yao, J., Yang, Y., Zhong, X., Jin, Y., Dunham, R. & Liu, Z. J., Feb 1 2017, In : Molecular Genetics and Genomics. 292, 1, p. 63-76 14 p.

Research output: Contribution to journalArticle

29 Scopus citations

Taste receptors and gustatory associated G proteins in channel catfish, Ictalurus punctatus

Gao, S., Liu, S., Yao, J., Zhou, T., Li, N., Li, Q., Dunham, R. & Liu, Z. J., Mar 1 2017, In : Comparative Biochemistry and Physiology - Part D: Genomics and Proteomics. 21, p. 1-9 9 p.

Research output: Contribution to journalArticle

3 Scopus citations

The CC and CXC chemokine receptors in channel catfish (Ictalurus punctatus) and their involvement in disease and hypoxia responses

Fu, Q., Yang, Y., Li, C., Zeng, Q., Zhou, T., Li, N., Liu, Y., Liu, S. & Liu, Z. J., Dec 1 2017, In : Developmental and Comparative Immunology. 77, p. 241-251 11 p.

Research output: Contribution to journalArticle

6 Scopus citations

The chemokinome superfamily: II. The 64 CC chemokines in channel catfish and their involvement in disease and hypoxia responses

Fu, Q., Yang, Y., Li, C., Zeng, Q., Zhou, T., Li, N., Liu, Y., Li, Y., Wang, X., Liu, S., Li, D. & Liu, Z. J., Aug 1 2017, In : Developmental and Comparative Immunology. 73, p. 97-108 12 p.

Research output: Contribution to journalArticle

16 Scopus citations

The chemokinome superfamily in channel catfish: I. CXC subfamily and their involvement in disease defense and hypoxia responses

Fu, Q., Zeng, Q., Li, Y., Yang, Y., Li, C., Liu, S., Zhou, T., Li, N., Yao, J., Jiang, C., Li, D. & Liu, Z. J., Jan 1 2017, In : Fish and Shellfish Immunology. 60, p. 380-390 11 p.

Research output: Contribution to journalArticle

18 Scopus citations

The NCK and ABI adaptor genes in catfish and their involvement in ESC disease response

Zhou, T., Li, N., Liu, S., Jin, Y., Fu, Q., Gao, S., Liu, Y. & Liu, Z. J., Aug 1 2017, In : Developmental and Comparative Immunology. 73, p. 119-123 5 p.

Research output: Contribution to journalArticle

5 Scopus citations
2016

A genome-wide association study identifies multiple regions associated with head size in catfish

Geng, X., Liu, S., Yao, J., Bao, L., Zhang, J., Li, C., Wang, R., Sha, J., Zeng, P., Zhi, D. & Liu, Z., 2016, In : G3: Genes, Genomes, Genetics. 6, 10, p. 3389-3398 10 p.

Research output: Contribution to journalArticle

35 Scopus citations