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Genome-wide identification, characterization, and expression profile of aquaporin gene family in flax (Linum usitatissimum).
Sci Rep. 2017 04 27; 7:46137.SR

Abstract

Membrane intrinsic proteins (MIPs) form transmembrane channels and facilitate transport of myriad substrates across the cell membrane in many organisms. Majority of plant MIPs have water transporting ability and are commonly referred as aquaporins (AQPs). In the present study, we identified aquaporin coding genes in flax by genome-wide analysis, their structure, function and expression pattern by pan-genome exploration. Cross-genera phylogenetic analysis with known aquaporins from rice, arabidopsis, and poplar showed five subgroups of flax aquaporins representing 16 plasma membrane intrinsic proteins (PIPs), 17 tonoplast intrinsic proteins (TIPs), 13 NOD26-like intrinsic proteins (NIPs), 2 small basic intrinsic proteins (SIPs), and 3 uncharacterized intrinsic proteins (XIPs). Amongst aquaporins, PIPs contained hydrophilic aromatic arginine (ar/R) selective filter but TIP, NIP, SIP and XIP subfamilies mostly contained hydrophobic ar/R selective filter. Analysis of RNA-seq and microarray data revealed high expression of PIPs in multiple tissues, low expression of NIPs, and seed specific expression of TIP3 in flax. Exploration of aquaporin homologs in three closely related Linum species bienne, grandiflorum and leonii revealed presence of 49, 39 and 19 AQPs, respectively. The genome-wide identification of aquaporins, first in flax, provides insight to elucidate their physiological and developmental roles in flax.

Authors+Show Affiliations

ICAR-NRC on Plant Biotechnology, PUSA, New Delhi, India.Departement de Phytologie, University Laval, Quebec, QC, Canada.ICAR-NRC on Plant Biotechnology, PUSA, New Delhi, India.Departement de Phytologie, University Laval, Quebec, QC, Canada.National Agricultural Science Fund (NASF), PUSA, ICAR, New Delhi, India.ICAR-NRC on Plant Biotechnology, PUSA, New Delhi, India.

Pub Type(s)

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

Language

eng

PubMed ID

28447607

Citation

Shivaraj, S M., et al. "Genome-wide Identification, Characterization, and Expression Profile of Aquaporin Gene Family in Flax (Linum Usitatissimum)." Scientific Reports, vol. 7, 2017, p. 46137.
Shivaraj SM, Deshmukh RK, Rai R, et al. Genome-wide identification, characterization, and expression profile of aquaporin gene family in flax (Linum usitatissimum). Sci Rep. 2017;7:46137.
Shivaraj, S. M., Deshmukh, R. K., Rai, R., Bélanger, R., Agrawal, P. K., & Dash, P. K. (2017). Genome-wide identification, characterization, and expression profile of aquaporin gene family in flax (Linum usitatissimum). Scientific Reports, 7, 46137. https://doi.org/10.1038/srep46137
Shivaraj SM, et al. Genome-wide Identification, Characterization, and Expression Profile of Aquaporin Gene Family in Flax (Linum Usitatissimum). Sci Rep. 2017 04 27;7:46137. PubMed PMID: 28447607.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide identification, characterization, and expression profile of aquaporin gene family in flax (Linum usitatissimum). AU - Shivaraj,S M, AU - Deshmukh,Rupesh K, AU - Rai,Rhitu, AU - Bélanger,Richard, AU - Agrawal,Pawan K, AU - Dash,Prasanta K, Y1 - 2017/04/27/ PY - 2016/08/23/received PY - 2017/03/13/accepted PY - 2017/4/28/entrez PY - 2017/4/28/pubmed PY - 2018/11/28/medline SP - 46137 EP - 46137 JF - Scientific reports JO - Sci Rep VL - 7 N2 - Membrane intrinsic proteins (MIPs) form transmembrane channels and facilitate transport of myriad substrates across the cell membrane in many organisms. Majority of plant MIPs have water transporting ability and are commonly referred as aquaporins (AQPs). In the present study, we identified aquaporin coding genes in flax by genome-wide analysis, their structure, function and expression pattern by pan-genome exploration. Cross-genera phylogenetic analysis with known aquaporins from rice, arabidopsis, and poplar showed five subgroups of flax aquaporins representing 16 plasma membrane intrinsic proteins (PIPs), 17 tonoplast intrinsic proteins (TIPs), 13 NOD26-like intrinsic proteins (NIPs), 2 small basic intrinsic proteins (SIPs), and 3 uncharacterized intrinsic proteins (XIPs). Amongst aquaporins, PIPs contained hydrophilic aromatic arginine (ar/R) selective filter but TIP, NIP, SIP and XIP subfamilies mostly contained hydrophobic ar/R selective filter. Analysis of RNA-seq and microarray data revealed high expression of PIPs in multiple tissues, low expression of NIPs, and seed specific expression of TIP3 in flax. Exploration of aquaporin homologs in three closely related Linum species bienne, grandiflorum and leonii revealed presence of 49, 39 and 19 AQPs, respectively. The genome-wide identification of aquaporins, first in flax, provides insight to elucidate their physiological and developmental roles in flax. SN - 2045-2322 UR - https://www.unboundmedicine.com/medline/citation/28447607/Genome_wide_identification_characterization_and_expression_profile_of_aquaporin_gene_family_in_flax__Linum_usitatissimum__ L2 - https://doi.org/10.1038/srep46137 DB - PRIME DP - Unbound Medicine ER -