Genome-wide Analysis of the GhZIP Gene Family in Upland Cotton

doi:10.7668/hbnxb.2015.06.002

Abstract

Abstract: ZIP gene family is one of the most important metal cation transporter gene family within the organism.This work is to obtain the systematic biological information of GhZIP gene family through comprehensive analysis and identification of the Gossypium hirsutum genome sequence.Comparative genomics approach was used throughout this research,45 GhZIP genes were identified from the genome sequence database of allotetraploid cotton ( Gossypium hirsutum L.acc.TM-1).This GhZIP genes were found to be distributed on 22 other subgenomes except for A04,A09,D04 and D09.D subgenomes was 5 more GhZIP genes than A subgenomes.There were 16 pairs of GhZIP genes in the A and D subgenomes with one-to-one correspondence relationship.Transmembrane domain was detected in 44 GhZIP genes,among them 36 GhZIP genes had 6-9 transmembrane domains.20 GhZIP genes had histidine-rich domain which localized at variable region of membrane inner.The result of subcellular localization indicated that only one GhZIP gene was not locate in plasmembrane.A Blast search on the NCBI EST database of Gossypium hirsutum showed that 21 GhZIP genes with no matching EST sequence,and the other 24 GhZIP genes were expressed in various tissues of root,stem,leaf,flower,ovules,fiber,et al.18 members in this 24 GhZIP genes were expressed in root and/or stem.The study results of this paper would provide an theoretical basis on cloning and functional research of GhZIP genes.

Key words: Cotton, Genome sequence of upland cotton, GhZIP gene

CLC Number:

S562.03
Q78

NI Wan-chao, GONG Yuan-yong, XU Zhen-zhen, GUO Shu-qiao, SHU Hong-mei, JIANG Lu. Genome-wide Analysis of the GhZIP Gene Family in Upland Cotton[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2015, 30(6): 8-16. doi: 10.7668/hbnxb.2015.06.002.

/ / Recommend / Download Citations

URL: http://www.hbnxb.net/EN/10.7668/hbnxb.2015.06.002

http://www.hbnxb.net/EN/Y2015/V30/I6/8

References

[1] Zhao H,Eide D.The yeast ZRT1 gene encodes the Zinc transporter protein of a high-affinity uptake system induced by Zinc limitation[J].Proceedings of the National Academy of Sciences of the United States of America,1996,93(6):2454-2458.
[2] Zhao H,Eide D.The ZRT2 gene encodes the low affinity Zinc transporter in Saccharomyces cerevisiae[J].The Journal of Biological Chemistry,1996,271(38):23203-23210.
[3] Eide D,Broderius M,Fett J,et al.A novel iron-regulated metal transporter from plants identified by functional expression in yeast[J].Proceedings of the National Academy of Sciences of the United States of America,1996,93(11):5624-5628.
[4] Guerinot M L.The ZIP family of metal transporters[J].Biochimica et Biophysica Acta,2000,1465(1/2):190-198.
[5] Mäser P,Thomine S,Schroeder J I,et al.Phylogenetic relationships within cation transporter families of Arabidopsis[J].Plant Physiology,2001,126(4):1646-1667.
[6] 蒲琦,李素贞,李盼.植物锌铁转运蛋白ZIP基因家族的研究进展[J].生物技术通报,2012(10):15-19.
[7] Pedas P,Ytting C K,Fuglsang A T,et al.Manganese efficiency in barley:identification and characterization of the metal ion transporter HvIRT1[J].Plant Physiology,2008,148(1):455-466.
[8] Pedas P,Schjoerring J K,Husted S.Identification and characterization of zinc-starvation-induced ZIP transporters from barley roots[J].Plant Physiology and Biochemistry,2009,47(5):377-383.
[9] Burleigh S H,Kristensen B K,Bechmann I E.A plasma membrane Zinc transporter from Medicago truncatula is up-regulated in roots by Zn fertilization,yet down-regulated by arbuscular mycorrhizal colonization[J].Plant Molecular Biology,2003,52(5):1077-1088.
[10] López-Millán A F,Ellis D R,Grusak M A.Identification and characterization of several new members of the ZIP family of metal ion transporters in Medicago truncatula[J].Plant Molecular Biology,2004,54(4):583-596.
[11] Chauhan R S.Bioinformatics approach toward identification of candidate genes for Zinc and Iron transporters in maize[J].Current Science,2006,91(4):510-515.
[12] 高峻.超积累东南景天转录组学分析与ZIP家族基因功能研究[D].杭州:浙江大学,2013.
[13] 张岗,李依民,李标,等.铁皮石斛锌铁调控转运蛋白基因的克隆与表达分析[J].中国中药杂志,2015,40(1):42-47.
[14] Cohen C K,Fox T C,Garvin D F,et al.The role of iron-deficiency stress responses in stimulating heavy-metal transport in plants[J].Plant Physiology,1998,116(3):1063-1072.
[15] Eckhardt U,Mas Marques A,Buckhout T J.Two iron-regulated cation transporters from tomato complement metal uptake-deficient yeast mutants[J].Plant Molecular Biology,2001,45(4):437-448.
[16] Gainza-Cortés F,Pérez-Dïaz R,Pérez-Castro R,et al.Characterization of a putative grapevine Zn transporter,VvZIP3,suggests its involvement in early reproductive development in Vitis vinifera L.[J].BMC Plant Biology,2012,12(1):111.
[17] Wang K,Wang Z,Li F,et al.The draft genome of a diploid cotton Gossypium raimondii[J].Nature Genetics,2012,44(10):1098-1103.
[18] Li F,Fan G,Wang K,et al.Genome sequence of the cultivated cotton Gossypium arboreum[J].Nature Genetics,2014,46(6):567-572.
[19] Li F,Fan G,Lu C,et al.Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution[J].Nature Biotechnology,2015,33(5):524-530.
[20] Zhang T,Hu Y,Jiang W,et al.Sequencing of allotetraploid cotton (Gossypium hirsutum L.acc.TM-1) provides a resource for fiber improvement[J].Nature Biotechnology,2015,33(5):531-537.
[21] 巩元勇,郭书巧,束红梅,等.棉花GhZIP4 基因的克隆及表达分析[J].西北植物学报,2013,33(1):27-33.
[22] Eng B H,Guerinot M L,Eide D,et al.Sequence analyses and phylogenetic characterization of the ZIP family of metal ion transport proteins[J].The Journal of Membrane Biology,1998,166(1):1-7.
[23] Krmer U,Talke I N,Hanikenne M.Transition metal transport[J].FEBS Letters,2007,581(12):2263-2272.
[24] Lee S,Kim S A,Lee J,et al.Zinc deficiency-inducible OsZIP8 encodes a plasma membrane-localized Zinc transporter in rice[J].Molecules and Cells,2010,29(6):551-558.
[25] Wintz H,Fox T,Wu Y Y,et al.Expression profiles of Arabidopsis thaliana in mineral deficiencies reveal novel transporters involved in metal homeostasis[J].The Journal of Biological Chemistry,2003,278(48):47644-47653.

Please choose a citation manager

Content to export