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Genome-wide identification and analysis of FK506-binding protein family gene family in strawberry (Fragaria × ananassa).
Gene. 2014 Jan 25; 534(2):390-9.GENE

Abstract

The FK506 binding proteins (FKBPs) are abundant and ubiquitous proteins belonging to the large peptidyl-prolylcis-trans isomerase superfamily. FKBPs are known to be involved in many biological processes including hormone signaling, plant growth, and stress responses through a chaperone or an isomerization of proline residues during protein folding. The availability of complete strawberry genome sequences allowed the identification of 23 FKBP genes by HMMER and blast analysis. Chromosome scaffold locations of these FKBP genes in the strawberry genome were determined and the protein domain and motif organization of FaFKBPs analyzed. The phylogenetic relationships between strawberry FKBPs were also assessed. The expression profiles of FaFKBPs genes results revealed that most FaFKBPs were expressed in all tissues, while a few FaFKBPs were specifically expressed in some of the tissues. These data not only contribute to some better understanding of the complex regulation of the strawberry FKBP gene family, but also provide valuable information for further research in strawberry functional genomics.

Authors+Show Affiliations

College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.Institute of Horticulture, Jiangsu Academy of Agricultural Sciences, Zhongling Street 50, Nanjing 210014, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China. Electronic address: SGLIPY@163.com.College of Horticulture, Nanjing Agricultural University, Tongwei Road 6, Nanjing 210095, PR China. Electronic address: fanggg@njau.edu.cn.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

24230972

Citation

Leng, Xiangpeng, et al. "Genome-wide Identification and Analysis of FK506-binding Protein Family Gene Family in Strawberry (Fragaria × Ananassa)." Gene, vol. 534, no. 2, 2014, pp. 390-9.
Leng X, Liu D, Zhao M, et al. Genome-wide identification and analysis of FK506-binding protein family gene family in strawberry (Fragaria × ananassa). Gene. 2014;534(2):390-9.
Leng, X., Liu, D., Zhao, M., Sun, X., Li, Y., Mu, Q., Zhu, X., Li, P., & Fang, J. (2014). Genome-wide identification and analysis of FK506-binding protein family gene family in strawberry (Fragaria × ananassa). Gene, 534(2), 390-9. https://doi.org/10.1016/j.gene.2013.08.056
Leng X, et al. Genome-wide Identification and Analysis of FK506-binding Protein Family Gene Family in Strawberry (Fragaria × Ananassa). Gene. 2014 Jan 25;534(2):390-9. PubMed PMID: 24230972.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide identification and analysis of FK506-binding protein family gene family in strawberry (Fragaria × ananassa). AU - Leng,Xiangpeng, AU - Liu,Dan, AU - Zhao,Mizhen, AU - Sun,Xin, AU - Li,Yu, AU - Mu,Qian, AU - Zhu,Xudong, AU - Li,Pengyu, AU - Fang,Jinggui, Y1 - 2013/11/11/ PY - 2013/07/19/received PY - 2013/08/12/revised PY - 2013/08/14/accepted PY - 2013/11/16/entrez PY - 2013/11/16/pubmed PY - 2014/4/18/medline KW - Bioinformatics analysis KW - CDS KW - CaM-BDs KW - ER KW - FK506-binding domain KW - FK506-binding proteins KW - FKBPs KW - FKBd KW - HSP90 KW - MD KW - PPIase KW - RT-PCR KW - SD KW - Sequence express analysis KW - Strawberry KW - TOR KW - TPR KW - calmodulin-binding domains KW - coding sequence KW - endoplasmic reticulum KW - heat streak protein 90 KW - multidomain KW - peptidyl-prolylcis-trans isomerase KW - semi-quantitative reverse transcription PCR KW - single-domain KW - target of rapamycin KW - tetratricopeptide repeat SP - 390 EP - 9 JF - Gene JO - Gene VL - 534 IS - 2 N2 - The FK506 binding proteins (FKBPs) are abundant and ubiquitous proteins belonging to the large peptidyl-prolylcis-trans isomerase superfamily. FKBPs are known to be involved in many biological processes including hormone signaling, plant growth, and stress responses through a chaperone or an isomerization of proline residues during protein folding. The availability of complete strawberry genome sequences allowed the identification of 23 FKBP genes by HMMER and blast analysis. Chromosome scaffold locations of these FKBP genes in the strawberry genome were determined and the protein domain and motif organization of FaFKBPs analyzed. The phylogenetic relationships between strawberry FKBPs were also assessed. The expression profiles of FaFKBPs genes results revealed that most FaFKBPs were expressed in all tissues, while a few FaFKBPs were specifically expressed in some of the tissues. These data not only contribute to some better understanding of the complex regulation of the strawberry FKBP gene family, but also provide valuable information for further research in strawberry functional genomics. SN - 1879-0038 UR - https://www.unboundmedicine.com/medline/citation/24230972/Genome_wide_identification_and_analysis_of_FK506_binding_protein_family_gene_family_in_strawberry__Fragaria_×_ananassa__ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0378-1119(13)01099-8 DB - PRIME DP - Unbound Medicine ER -