张泽老师个人主页

Ze Zhang, Ph.D.

Professor of Evolutionary Genetics
Laboratory of Evolutionary and Functional Genomics
School of Life Sciences
Chongqing University
No.55 Daxuecheng South Rd.,Shapingba District
Chongqing University Huxi Campus
Chongqing 401331
China
Tel: +86-23-65678449; E-mail:zezhang@cqu.edu.cn

Research Interests

1. The Genetics of Silkworm Domestication
The domesticated silkworm (Bombyx mori) was domesticated from the wild silkworm (Bombyx mandarina) about 5,000-10,000 years ago. In the Silk Road era about 2,000 years ago, the domesticated silkworm played a crucial role in globalization. It is generally thought that the domesticated silkworm initially originated from China and then spread to Europe, Japan, and other countries. Currently, the wild silkworm exists in fields. This provides a good opportunity for studying the genetics of silkworm domestication by comparing the genomes of the domesticated and wild silkworms. Long term artificial selection of domestication and breeding has made the domesticated silkworm quite different from the wild silkworm in both morphological and behavioral traits. What is the genetical basis of differences in morphology and behavior between the domesticated and wild silkworms? Which changes of genes made the domesticated silkworm from the wild silkworm? Did the artificial and natural selections leave the signatures in the corresponding genomes? If so, are they different from each other? Now, we are trying to answer the above questions at molecular level.

2. The Annoation and Functional Characterization of Transposable Elements (TEs) in the Silkworm
Genome-wide annotation of the silkworm (Bombyx mori) genome revealed that ~40% of the genome is composed of TEs. This proportion is the largest one in the insect genomes sequenced to date except for mosquito Aedes aegypti with 47% of the genome being TEs. Now, we are doing (1) comprehensive annotation of TEs in silkworm, (2) the study of horizontal transfer of TEs in insects, (3) the functional characterization of TEs in silkworm. In addition, we constructed the Database of the silkworm TEs-BmTEdb (http://gene.cqu.edu.cn/BmTEdb/).

Biography

2008.1-	Professor, School of Life Sciences, Chongqing University, China
2006.2-2007.12	Professor, The Institute of Sericulture and Systems Biology, Southwest University, China
2004.2-2006.1	Research Fellow, School of Biosciences, The University of Birmingham, UK
2002.2-2004.1	JST Research Fellow, in Prof. Hirohisa Kishino lab, work on evolution of duplicated genes, The University of Tokyo, Japan
2000.10-2002.1	Research Scientist, Southwest Agricultural University, China
1998.10-2000.9	Postdoc with Prof. Tsuneyuki Yamazaki, work on the evolution of amylase multigene family in Drosophila, Kyushu University, Japan
1997.1-1998.9	Research Scientist, Southwest Agricultural University, China
1996.12	PhD, Thesis: "The Genetic Analysis of Amount of Laid Eggs and Evaluation for Mating Designs and Variety Stability in Silkworm (Bombyx mori L.)." Southwest Agricultural University, China
1992.9-1996.12	PhD studies on Quantitative and Population Genetics in Silkworm, Southwest Agricultural University, China
1986.8-1992.8	Lecturer, Department of Agronomy, Southwest Agricultural University, China
1983.9-1986.7	Diplom (M.Sc.) in Quantitative Genetics and Crop Breeding, Southwest Agricultural University, China
1979.9-1983.7	Diplom (B.Sc.) in Agronomy, Southwest Agricultural College, China

Publications

Zhou QZ, Fang SM, Zhang Q, Yu QY, Zhang Z* (2017). Identification and comparison of long non-coding RNAs in the silk gland between domestic and wild silkworms. Insect Sci doi: 10.1111/1744-7917.12443 pdf
Zhang Q, Sun W, Sun BY, Xiao Y, Zhang Z* (2017). The dynamic landscape of gene regulation during Bombyx mori oogenesis. BMC Genomics 18: 714 pdf
Sun W*, Wang CF, Zhang Z (2017). Transcription factor E74A affects the ecdysone titer by regulating the expression of the EO gene in the silkworm, Bombyx mori. BBA-General Subjects 1861:551-558 pdf
Yu QY*, Fang SM, Zhang Z , Jiggins CD* (2016). The transcriptome response of Heliconius melpomene larvae to a novel host plant. Mol Ecol 25(19): 4850-65 pdf
Sun W, Shen YH, Zhou LX, Zhang Z* (2016). Ecdysone titer determined by 3DE-3beta-reductase enhances the immune response in the silkworm. J Immunol 196(4): 1646-1654 pdf
Fu P, Sun W, Zhang Z* (2016). Molecular cloning, expression and characterization of acylpeptide hydrolase in the silkworm, Bombyx mori. Gene 580(1):8-16 pdf
Fang SM^#, Hu BL^#, Zhou QZ, Yu QY*, Zhang Z (2015). Comparative analysis of the silk gland transcriptomes between the domestic and wild silkworms. BMC Genomics 16: 60 (# these authors contributed equally) pdf
Tang Z, Zhang HH, Huang K, Zhang XG, Han MJ, Zhang Z* (2015). Repeated horizontal transfers of four DNA transposons in invertebrates and bats. Mob DNA 6(1): 3 pdf
Sun W, Shen YH, Han MJ, Cao YF, Zhang Z* (2014). An adaptive transposable element insertion in the regulatory region of the EO gene in the domesticated silkworm, Bombyx mori. Mol Biol Evol 31: 3302-3313 pdf
Yang SY^#, Han MJ^#, Kang LF, Li ZW, Shen YH*, Zhang Z (2014). Demographic history and gene flow during silkworm domestication. BMC Evol Biol 14:185 (# these authors contributed equally) pdf
Han MJ, Xu HE, Zhang HH, Feschotte C, Zhang Z* (2014). Spy: A new group of eukaryotic DNA transposons without target site duplications. Genome Biol Evol 6(7): 1748-1757 pdf
Zhang HH, Feschotte C, Han MJ & Zhang Z* (2014). Recurrent horizontal transfers of Chapaev transposons in diverse invertebrate and vertebrate animals. Genome Biol Evol 6(6): 1375-1386 pdf
Zhao Q, Han MJ, Sun W & Zhang Z* (2014). Copy number variations among silkowrms. BMC Genomics 15: 251 pdf
Zhang HH, Xu HE, Shen YH, Han MJ & Zhang Z* (2013). The origin and evolution of six miniature inverted-repeat transposable elements (MITEs) in Bombyx mori and Rhodnius prolixus. Genome Biol Evol 5(11): 2020-2031 pdf
Han MJ, Shen YH, Xu MS, Liang HY, Zhang HH & Zhang Z* (2013). Identification and evolution of the silkworm Helitrons and their contribution to transcripts. DNA Res 20: 471-484 pdf
Zhao Q, Zhu ZL, Kasahara M, Morishita S & Zhang Z* (2013). Segmental duplications in the silkworm genome. BMC Genomics 14: 521 pdf
Xu HE, Zhang HH, Xia T, Han MJ, Shen YH & Zhang Z* (2013). BmTEdb: a collective database of transposable elements in the silkworm genome. Database (Oxford) 2013: bat055pdf
Zhang HH, Shen YH, Xu HE, Liang HY, Han MJ & Zhang Z* (2013). A novel hAT element in Bombyx mori and Rhodnius prolixus: its relationship with miniature inverted repeat transposable elements (MITEs) and horizontal transfer. Insect Mol Biol 22(5): 584-596pdf
Hu YG, Shen YH*, Zhang Z & Shi GQ (2013). Melanin and urate act to prevent ultraviolet damage in the integument of the silkworm, Bombyx mori. Arch Insect Biochem Physiol 83(1): 41-55pdf
Sun W, Shen YH, Yang WJ, Cao YF, Xiang ZH & Zhang Z* (2012). Expansion of the silkworm GMC oxidoreductase genes is associated with immunity. Insect Biochem Mol Biol 42: 935-945pdf
Shi GQ, Yu QY, Shi L & Zhang Z* (2012). Molecular cloning and characterization of peroxiredoxin 4 involved in protection against oxidative stress in the silkworm Bombyx mori. Insect Mol Biol 21: 581-92pdf
Zhang YE, Ma HJ, Feng DD, Lai XF, Chen ZM, Xu MY, Yu QY & Zhang Z* (2012). Induction of detoxification enzymes by quercetin in the silkworm. J Econ Entomol 105(3):1034-42pdf
Kang LF, Zhu ZL*, Zhao Q, Chen LY* & Zhang Z (2012). Newly evolved introns in human retrogenes provide novel insights into their evolutionary roles. BMC Evol Biol 12:128pdf
Sun W, Yu HS, Shen YH, Banno Y, Xiang ZH & Zhang Z* (2012). Phylogeny and evolutionary history of the silkworm. Sci China Life Sci 55(6):483-496pdf
Shi GQ, Yu QY & Zhang Z* (2012). Annotation and evolution of the antioxidant genes in the silkworm, Bombyx mori. Arch Insect Biochem Physiol 79(2):87-103pdf
Sun W, Shen YH, Qi DW, Xiang ZH & Zhang Z* (2012). Molecular cloning and characterization of ecdysone oxidase and 3-dehydroecdysone-3alpha-reductase involved in the ecdysone inactivation pathway of silkworm, Bombyx mori. Int J Biol Sci 8: 125-138 pdf
Li ZW, Shen YH, Xiang ZH & Zhang Z* (2011). Pathogen-origin horizontally transferred genes contribute to the evolution of Lepidopteran insects. BMC Evol Biol 11: 356 pdf
Guo Y, Shen YH, Sun W, Kishino H, Xiang ZH & Zhang Z* (2011). Nucleotide diversity and selection signature in the domesticated silkworm, Bombyx mori, and wild silkworm, Bombyx mandarina. J Insect Sci 11:155 pdf
Yu HS, Shen YH, Yuan GX, Hu YG, Xu HE, Xiang ZH & Zhang Z* (2011). Evidence of selection at melanin synthesis pathway loci during silkworm domestication. Mol Biol Evol 28: 1785-1799 pdf
Han MJ, Shen YH, Gao YH, Chen LY*, Xiang ZH & Zhang Z* (2010). Burst expansion, distribution and diversification of MITEs in the silkworm genome. BMC Genomics 11: 520 pdf
Yu QY, Lu C*, Li WL, Xiang ZH & Zhang Z* (2009). Annotation and expression of carboxylesterases in the silkworm, Bombyx mori. BMC Genomics 10: 553 pdf
Xia Q^#, Guo Y^#, Zhang Z^#, Li D^# Xuan Z^#, Li Z^#, Dai FY, Li Y, Cheng D, Li R, Cheng T, Jiang T, Becquet C, Xu X, Liu C, Zha X, Fan W, Lin Y, Shen YH, Jiang L, Jensen J, Hellmann I, Tang S, Zhao P, Xu H, Yu C, Zhang G, Li J, Cao J, Liu S, He N, Zhou Y, Liu H, Zhao J, Ye C, Du Z, Pan G, Zhao A, Shao H, Zeng W, Wu P, Li C, Pan M, Li J, Yin X, Li D, Wang J, Zheng H, Wang W, Zhang X, Li S, Yang H, Lu C, Nielsen R, Zhou Z, Wang J, Xiang ZH, Wang J (2009). Complete resequencing of 40 genomes reveals domestication events and genes in silkworm (Bombyx). Science 326: 433-436 (# these authors contributed equally) pdf
Li ZW, Li X, Yu QY, Xiang ZH, Kishino H & Zhang Z* (2009). The small heat shock protein (sHSP) genes in the silkworm, Bombyx mori, and comparative analysis with other insect sHSP genes. BMC Evol Biol 9: 215 pdf
The International Silkworm Genome Consortium (2008). The genome of a lepidopteran model insect, the silkworm Bombyx mori. Insect Biochem Mol Biol 38: 1036-1045 pdf
Yu QY, Lu C*, Li B, Fang SM, Zuo WD, Dai FY Zhang Z & Xiang ZH (2008). Identification, genomic organization and expression pattern of glutathione S-transferase in the silkworm, Bombyx mori. Insect Biochem Mol Biol 38: 1158-1164 pdf
Huang FF, Chai CL, Zhang Z, Liu ZH, Dai FY, Lu C* & Xiang ZH (2008). The UDP-glucosyltransferase multigene family in Bombyx mori. BMC Genomics 9: 563 pdf
Chai CL, Zhang Z, Huang FF, Wang XY, Yu QY, Liu BB, Tian T, Xia Q, Lu C* & Xiang ZH (2008). A genomewide survey of homeobox genes and identification of novel structure of the Hox cluster in the silkworm, Bombyx mori. Insect Biochem Mol Biol 38: 1111-1120 pdf
Pan M, Yu QY, Xia YL, Dai FY, Liu YQ, Lu C*, Zhang Z AND Xiang ZH (2008). Characterization of mitochondrial genome of Chinese wild mulberry silkworm, Bombyx mandarina (Lepidoptera: Bombycidae). Science in China Series C: Life Sciences 51: 693-701 pdf
Leach LJ, Zhang Z, Lu C, Kearsey MJ & Luo ZW* (2007). The role of cis-regulatory motifs and genetical control of expression in the divergence of yeast duplicate genes. Mol Biol Evol 24:2556-2565 pdf
Lu C, Zhang Z, Leach LJ, Kearsey MJ AND Luo ZW* (2007). Impacts of yeast metabolic network structure on enzyme evolution. Genome Biol 8:407pdf
Wang LL, Chen KP*,Zhang Z, Yao Q, Gao GT AND Zhao Y (2006). Phylogenetic analysis of Nosema antheraeae (Micosporidia) isolated from Chinese oak silkworm, Antheraea pernyi. J Eukaryot Microbiol 53(4):310-313pdf
Luo ZW*, Zhang Z, Leach LJ, Zhang RM, Bradshaw JE & Kearsey MJ (2006). Constructing genetic linkage maps under a tetrasomic model. Genetics 172:2635-2645pdf
Luo ZW*, Zhang Z, Zhang RM, Pandey M, Gailing O, Hattemer HH & Finkeldey R (2006). Modeling population genetic data in autotetraploid species. Genetics 172:639-646pdf
Luo ZW* & Zhang Z(2005). Commentary on Wu and Ma. Genetics 171:2149-2150pdf
Zhang Z*, Luo ZW*, Kishino H & Kearsey MJ (2005). Divergence pattern of duplicate genes in protein-protein interactions follows the power law. Mol Biol Evol 22(3):501-505pdf
Zhang Z* & Kishino H (2004). Genomic background predicts the fate of duplicated genes: evidence from the yeast genome. Genetics166(4):1995-1999pdf
Zhang Z* & Kishino H (2004). Genomic background drives the divergence of duplicated amylase genes at synonymous sites in Drosophila. Mol Biol Evol 21(2):222-227pdf
Chujo A, Zhang Z, Kishino H, Shimamoto K & Kyozuka J* (2003). Partial conservation of LFY function between rice and Arabidopsis. Plant & Cell Physiology 44:1311-1319pdf
Zhang Z*, Yamazaki T, Inomata N & Kishino H (2003). Evolutionary history and mode of the amylase multigene family in Drosophila. J Mol Evol 57:702-709pdf
Zhang Z, Inomata N*, Cariou ML, Da Lage JL & Yamazaki T (2003). Phylogeny and evolution of the amylase multigenes in the Drosophila montium species subgroup. J Mol Evol56:121-130pdf
Zhang Z, Inomata N*, Ohba T, Cariou ML & Yamazaki T (2002). Codon bias differentiates between the duplicated amylase loci following gene duplication in Drosophila. Genetics 161:1187-1196pdf

Last modified: 13 September 2017