Phylogenetic, structural, functional characterisation and effect of exogenous spermidine on rice (Oryza sativa) HAK transporters under salt stress

References

Ahmadizadeh M, Vispo NA, Calapit-Palao CDO, Pangaan ID, Viña CD, Singh RK (2016) Reproductive stage salinity tolerance in rice: a complex trait to phenotype. Indian Journal of Plant Physiology 21, 528–536.
| Reproductive stage salinity tolerance in rice: a complex trait to phenotype.Crossref | GoogleScholarGoogle Scholar |

Anschütz U, Becker D, Shabala S (2014) Going beyond nutrition: regulation of potassium homoeostasis as a common denominator of plant adaptive responses to environment. Journal of Plant Physiology 171, 670–687.
| Going beyond nutrition: regulation of potassium homoeostasis as a common denominator of plant adaptive responses to environment.Crossref | GoogleScholarGoogle Scholar |

Arsova B, Watt M, Usadel B (2018) Monitoring of plant protein post-translational modifications using targeted proteomics. Frontiers in Plant Science 9, 1168
| Monitoring of plant protein post-translational modifications using targeted proteomics.Crossref | GoogleScholarGoogle Scholar |

Assaha DVM, Ueda A, Saneoka H, Al-Yahyai R, Yaish MW (2017) The role of Na+ and K+ transporters in salt stress adaptation in glycophytes. Frontiers in Physiology 8, 509
| The role of Na⁺ and K⁺ transporters in salt stress adaptation in glycophytes.Crossref | GoogleScholarGoogle Scholar |

Bahar I, Lezon TR, Bakan A, Shrivastava IH (2010) Normal mode analysis of biomolecular structures: functional mechanisms of membrane proteins. Chemical Reviews 110, 1463–1497.
| Normal mode analysis of biomolecular structures: functional mechanisms of membrane proteins.Crossref | GoogleScholarGoogle Scholar |

Bailey TL, Boden M, Buske FA, et al. (2009) MEME suite: tools for motif discovery and searching. Nucleic Acids Research 37, W202–W208.
| MEME suite: tools for motif discovery and searching.Crossref | GoogleScholarGoogle Scholar |

Bañuelos MA, Garciadeblas B, Cubero B, Rodríguez-Navarro A (2002) Inventory and functional characterization of the HAK potassium transporters of rice. Plant Physiology 130, 784–795.
| Inventory and functional characterization of the HAK potassium transporters of rice.Crossref | GoogleScholarGoogle Scholar |

Bofkin L, Goldman N (2007) Variation in evolutionary processes at different codon positions. Molecular Biology and Evolution 24, 513–521.
| Variation in evolutionary processes at different codon positions.Crossref | GoogleScholarGoogle Scholar |

Cai K, Zeng F, Wang J, Zhang G (2021) Identification and characterization of HAK/KUP/KT potassium transporter gene family in barley and their expression under abiotic stress. BMC Genomics 22, 317
| Identification and characterization of HAK/KUP/KT potassium transporter gene family in barley and their expression under abiotic stress.Crossref | GoogleScholarGoogle Scholar |

Chen G, Hu Q, Luo L, Yang T, Zhang S, Hu Y, Yu L, Xu G (2015) Rice potassium transporter OsHAK1 is essential for maintaining potassium mediated growth and functions in salt tolerance over low and high potassium concentration ranges. Plant, Cell & Environment 38, 2747–2765.
| Rice potassium transporter OsHAK1 is essential for maintaining potassium mediated growth and functions in salt tolerance over low and high potassium concentration ranges.Crossref | GoogleScholarGoogle Scholar |

Cheng X, Liu X, Mao W, Zhang X, Chen S, Zhan K, Bi H, Xu H (2018) Genome-wide identification and analysis of HAK/KUP/KT potassium transporters gene family in wheat (Triticum aestivum L.). International Journal of Molecular Sciences 19, 3969
| Genome-wide identification and analysis of HAK/KUP/KT potassium transporters gene family in wheat (Triticum aestivum L.).Crossref | GoogleScholarGoogle Scholar |

Czuba LC, Hillgren KM, Swaan PW (2018) Post-translational modifications of transporters. Pharmacology & Therapeutics 192, 88–99.
| Post-translational modifications of transporters.Crossref | GoogleScholarGoogle Scholar |

Deinlein U, Stephan AB, Horie T, Luo W, Xu G, Schroeder JI (2014) Plant salt-tolerance mechanisms. Trends in Plant Science 19, 371–379.
| Plant salt-tolerance mechanisms.Crossref | GoogleScholarGoogle Scholar |

Dolinsky TJ, Czodrowski P, Li H, Nielsen JE, Jensen JH, Klebe G, Baker NA (2007) PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations. Nucleic Acids Research 35, W522–W525.
| PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations.Crossref | GoogleScholarGoogle Scholar |

Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.
| Confidence limits on phylogenies: an approach using the bootstrap.Crossref | GoogleScholarGoogle Scholar |

Feng H, Tang Q, Cai J, Xu B, Xu G, Yu L (2019) Rice OsHAK16 functions in potassium uptake and translocation in shoot, maintaining potassium homeostasis and salt tolerance. Planta 250, 549–561.
| Rice OsHAK16 functions in potassium uptake and translocation in shoot, maintaining potassium homeostasis and salt tolerance.Crossref | GoogleScholarGoogle Scholar |

Feng X, Liu W, Qiu CW, Zeng F, Wang Y, Zhang G, Chen ZH, Wu F (2020a) HvAKT2 and HvHAK1 confer drought tolerance in barley through enhanced leaf mesophyll H+ homoeostasis. Plant Biotechnology Journal 18, 1683–1696.
| HvAKT2 and HvHAK1 confer drought tolerance in barley through enhanced leaf mesophyll H⁺ homoeostasis.Crossref | GoogleScholarGoogle Scholar |

Feng X, Wang Y, Zhang N, Wu Z, Zeng Q, Wu J, Wu X, Wang L, Zhang J, Qi Y (2020b) Genome-wide systematic characterization of the HAK/KUP/KT gene family and its expression profile during plant growth and in response to low-K+ stress in Saccharum. BMC Plant Biology 20, 20
| Genome-wide systematic characterization of the HAK/KUP/KT gene family and its expression profile during plant growth and in response to low-K⁺ stress in Saccharum.Crossref | GoogleScholarGoogle Scholar |

Gasteiger E, Hoogland C, Gattiker A, Duvaud S, Wilkins MR, Appel RD, Bairoch A (2005) Protein identification and analysis tools on the ExPASy server; In ‘The proteomics protocols handbook’. Springer protocols handbook. (Ed. JM Walker) pp. 571–607. (Humana Press)
| Crossref |

Geourjon C, Deléage G (1995) SOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments. Computer Applications in the Biosciences 11, 681–684.
| SOPMA: significant improvements in protein secondary structure prediction by consensus prediction from multiple alignments.Crossref | GoogleScholarGoogle Scholar |

Gierth M, Mäser P (2007) Potassium transporters in plants – involvement in K+ acquisition, redistribution and homeostasis. FEBS Letters 581, 2348–2356.
| Potassium transporters in plants – involvement in K+ acquisition, redistribution and homeostasis.Crossref | GoogleScholarGoogle Scholar |

Gilbert W, DeSouza SJ, Long M (1997) Origin of genes. Proceedings of the National Academy of Sciences of the United States of America 94, 7698–7703.
| Origin of genes.Crossref | GoogleScholarGoogle Scholar |

Gomez-Porras JL, Riaño-Pachón DM, Benito B, Haro R, Sklodowski K, Rodríguez-Navarro A, Dreyer I (2012) Phylogenetic analysis of K+ transporters in bryophytes, lycophytes, and flowering plants indicates a specialization of vascular plants. Frontiers in Plant Science 3, 167
| Phylogenetic analysis of K+ transporters in bryophytes, lycophytes, and flowering plants indicates a specialization of vascular plants.Crossref | GoogleScholarGoogle Scholar |

Gupta M, Qiu X, Wang L, Xie W, Zhang C, Xiong L, Lian X, Zhang Q (2008) KT/HAK/KUP potassium transporters gene family and their whole-life cycle expression profile in rice (Oryza sativa). Molecular Genetics and Genomics 280, 437–452.
| KT/HAK/KUP potassium transporters gene family and their whole-life cycle expression profile in rice (Oryza sativa).Crossref | GoogleScholarGoogle Scholar |

Hasanuzzaman M, Borhannuddin Bhuyan MHM, Nahar K, Shahadat Hossain M, Mahmud JA, Shahadat Hossen M, Masud AAC, Moumita , Fujita M (2018) Potassium: a vital regulator of plant responses and tolerance to abiotic stresses. Agronomy 8, 31
| Potassium: a vital regulator of plant responses and tolerance to abiotic stresses.Crossref | GoogleScholarGoogle Scholar |

Hasegawa M, Kishino H, Yano T (1985) Dating the human-ape split by a molecular clock of mitochondrial DNA. Journal of Molecular Evolution 22, 160–174.
| Dating the human-ape split by a molecular clock of mitochondrial DNA.Crossref | GoogleScholarGoogle Scholar |

He C, Cui K, Duan A, Zeng Y, Zhang J (2012) Genome-wide and molecular evolution analysis of the Poplar KT/HAK/KUP potassium transporter gene family. Ecology and Evolution 2, 1996–2004.
| Genome-wide and molecular evolution analysis of the Poplar KT/HAK/KUP potassium transporter gene family.Crossref | GoogleScholarGoogle Scholar |

Holm L, Park J (2000) DaliLite workbench for protein structure comparison. Bioinformatics 16, 566–567.
| DaliLite workbench for protein structure comparison.Crossref | GoogleScholarGoogle Scholar |

Horie T, Sugawara M, Okada T, Taira K, Kaothien-Nakayama P, Katsuhara M, Shinmyo A, Nakayama H (2011) Rice sodium-insensitive potassium transporter, OsHAK5, confers increased salt tolerance in tobacco BY2 cells. Journal of Bioscience and Bioengineering 111, 346–356.
| Rice sodium-insensitive potassium transporter, OsHAK5, confers increased salt tolerance in tobacco BY2 cells.Crossref | GoogleScholarGoogle Scholar |

Hu B, Jin J, Guo AY, Zhang H, Luo J, Gao G (2015) GSDS 2.0: an upgraded gene feature visualization server. Bioinformatics 31, 1296–1297.
| GSDS 2.0: an upgraded gene feature visualization server.Crossref | GoogleScholarGoogle Scholar |

Humphrey W, Dalke A, Schulten K (1996) VMD: visual molecular dynamics. Journal of Molecular Graphics and Modelling 14, 33–38.
| VMD: visual molecular dynamics.Crossref | GoogleScholarGoogle Scholar |

Hyun TK, Rim Y, Kim E, Kim JS (2014) Genome-wide and molecular evolution analyses of the KT/HAK/KUP family in tomato (Solanum lycopersicum L.). Genes & Genomics 36, 365–374.
| Genome-wide and molecular evolution analyses of the KT/HAK/KUP family in tomato (Solanum lycopersicum L.).Crossref | GoogleScholarGoogle Scholar |

Jin R, Jiang W, Yan M, Zhang A, Liu M, Zhao P, Chen X, Tang Z (2021) Genome-wide characterization and expression analysis of HAK K+ transport family in Ipomoea. 3 Biotech 11, 3
| Genome-wide characterization and expression analysis of HAK K⁺ transport family in Ipomoea.Crossref | GoogleScholarGoogle Scholar |

Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16, 111–120.
| A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences.Crossref | GoogleScholarGoogle Scholar |

Knowles DG, McLysaght A (2006) High rate of recent intron gain and loss in simultaneously duplicated Arabidopsis genes. Molecular Biology and Evolution 23, 1548–1557.
| High rate of recent intron gain and loss in simultaneously duplicated Arabidopsis genes.Crossref | GoogleScholarGoogle Scholar |

Kong H, Landherr LL, Frohlich MW, Leebens-Mack J, Ma H, dePamphilis CW (2007) Patterns of gene duplication in the plantSKP1 gene family in angiosperms: evidence for multiple mechanisms of rapid gene birth. The Plant Journal 50, 873–885.
| Patterns of gene duplication in the plantSKP1 gene family in angiosperms: evidence for multiple mechanisms of rapid gene birth.Crossref | GoogleScholarGoogle Scholar |

Kosakovsky Pond SL, Frost SDW (2005) Not so different after all: a comparison of methods for detecting amino acid sites under selection. Molecular Biology and Evolution 22, 1208–1222.
| Not so different after all: a comparison of methods for detecting amino acid sites under selection.Crossref | GoogleScholarGoogle Scholar |

Kosakovsky Pond SL, Frost SDW, Muse SV (2005) HyPhy: hypothesis testing using phylogenies. Bioinformatics 21, 676–679.
| HyPhy: hypothesis testing using phylogenies.Crossref | GoogleScholarGoogle Scholar |

Kumar S, Gadagkar SR (2001) Disparity index: a simple statistic to measure and test the homogeneity of substitution patterns between molecular sequences. Genetics 158, 1321–1327.
| Disparity index: a simple statistic to measure and test the homogeneity of substitution patterns between molecular sequences.Crossref | GoogleScholarGoogle Scholar |

Li W, Xu G, Alli A, Yu L (2018) Plant HAK/KUP/KT K+ transporters: function and regulation. Seminars in Cell & Developmental Biology 74, 133–141.
| Plant HAK/KUP/KT K+ transporters: function and regulation.Crossref | GoogleScholarGoogle Scholar |

Liu K, Fu H, Bei Q, Luan S (2000) Inward potassium channel in guard cells as a target for polyamine regulation of stomatal movements. Plant Physiology 124, 1315–1326.
| Inward potassium channel in guard cells as a target for polyamine regulation of stomatal movements.Crossref | GoogleScholarGoogle Scholar |

Liu S, Wu B, Xie Y, Zheng S, Xie J, Wang W, Xiang D, Li C (2022) Genome-wide analysis of HAK/KUP/KT potassium transporter genes in banana (Musa acuminata L.) and their tissue-specific expression profiles under potassium stress. Plant Growth Regulation 97, 51–60.
| Genome-wide analysis of HAK/KUP/KT potassium transporter genes in banana (Musa acuminata L.) and their tissue-specific expression profiles under potassium stress.Crossref | GoogleScholarGoogle Scholar |

Mishra NK, Chang J, Zhao PX (2014) Prediction of membrane transport proteins and their substrate specificities using primary sequence information. PLoS ONE 9, e100278
| Prediction of membrane transport proteins and their substrate specificities using primary sequence information.Crossref | GoogleScholarGoogle Scholar |

Munns R, Tester M (2008) Mechanisms of salinity tolerance. Annual Review of Plant Biology 59, 651–681.
| Mechanisms of salinity tolerance.Crossref | GoogleScholarGoogle Scholar |

Muse SV, Gaut BS (1994) A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome. Molecular Biology and Evolution 11, 715–724.
| A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome.Crossref | GoogleScholarGoogle Scholar |

Nieves-Cordones M, Alemán F, Martínez V, Rubio F (2010) The Arabidopsis thaliana HAK5 K+ transporter is required for plant growth and K+ acquisition from low K+ solutions under saline conditions. Molecular Plant 3, 326–333.
| The Arabidopsis thaliana HAK5 K+ transporter is required for plant growth and K+ acquisition from low K+ solutions under saline conditions.Crossref | GoogleScholarGoogle Scholar |

Nieves-Cordones M, Ródenas R, Chavanieu A, Rivero RM, Martinez V, Gaillard I, Rubio F (2016) Uneven HAK/KUP/KT protein diversity among angiosperms: species distribution and perspectives. Frontiers in Plant Science 7, 127
| Uneven HAK/KUP/KT protein diversity among angiosperms: species distribution and perspectives.Crossref | GoogleScholarGoogle Scholar |

Okada T, Nakayama H, Shinmyo A, Yoshida K (2008) Expression of OsHAK genes encoding potassium ion transporters in rice. Plant Biotechnology Journal 25, 241–245.
| Expression of OsHAK genes encoding potassium ion transporters in rice.Crossref | GoogleScholarGoogle Scholar |

Okada T, Yamane S, Yamaguchi M, Kato K, Shinmyo A, Tsunemitsu Y, Iwasaki K, Ueno D, Demura T (2018) Characterization of rice KT/HAK/KUP potassium transporters and K+ uptake by HAK1 from Oryza sativa. Plant Biotechnology Journal 35, 101–111.
| Characterization of rice KT/HAK/KUP potassium transporters and K+ uptake by HAK1 from Oryza sativa.Crossref | GoogleScholarGoogle Scholar |

Olechnovič K, Venclovas Č (2019) VoroMQA web server for assessing three-dimensional structures of proteins and protein complexes. Nucleic Acids Research 47, W437–W442.
| VoroMQA web server for assessing three-dimensional structures of proteins and protein complexes.Crossref | GoogleScholarGoogle Scholar |

Ou W, Mao X, Huang C, Tie W, Yan Y, Ding Z, Wu C, Xia Z, Wang W, Zhou S, Li K, Hu W (2018) Genome-wide identification and expression analysis of the KUP family under abiotic stress in cassava (Manihot esculenta Crantz). Frontiers in Physiology 9, 17
| Genome-wide identification and expression analysis of the KUP family under abiotic stress in cassava (Manihot esculenta Crantz).Crossref | GoogleScholarGoogle Scholar |

Palmer JD, Logsdon JM (1991) The recent origins of introns. Current Opinion in Genetics & Development 1, 470–477.
| The recent origins of introns.Crossref | GoogleScholarGoogle Scholar |

Pottosin I, Shabala S (2014) Polyamines control of cation transport across plant membranes: implications for ion homeostasis and abiotic stress signaling. Frontiers in Plant Science 5, 154
| Polyamines control of cation transport across plant membranes: implications for ion homeostasis and abiotic stress signaling.Crossref | GoogleScholarGoogle Scholar |

Ragel P, Raddatz N, Leidi EO, Quintero FJ, Pardo JM (2019) Regulation of K+ Nutrition in Plants. Frontiers in Plant Science 10, 281
| Regulation of K⁺ Nutrition in Plants.Crossref | GoogleScholarGoogle Scholar |

Rai H, Yokoyama S, Satoh-Nagasawa N, Furukawa J, Nomi T, Ito Y, Fujimura S, Takahashi H, Suzuki R, Yousra E, Goto A, Fuji S, Nakamura S-I, Shinano T, Nagasawa N, Wabiko H, Hattori H (2017) Cesium uptake by rice roots largely depends upon a single gene, HAK1, which encodes a potassium transporter. Plant and Cell Physiology 58, 1486–1493.
| Cesium uptake by rice roots largely depends upon a single gene, HAK1, which encodes a potassium transporter.Crossref | GoogleScholarGoogle Scholar |

Rivetta A, Allen KE, Slayman CW, Slayman CL (2013) Coordination of K+ transporters in Neurospora: TRK1 is scarce and constitutive, while HAK1 is abundant and highly regulated. Eukaryote Cell 12, 684–696.
| Coordination of K⁺ transporters in Neurospora: TRK1 is scarce and constitutive, while HAK1 is abundant and highly regulated.Crossref | GoogleScholarGoogle Scholar |

Rubio F, Alemán F, Nieves-Cordones M, Martínez V (2010) Studies on Arabidopsis athak5, atakt1 double mutants disclose the range of concentrations at which AtHAK5, AtAKT1 and unknown systems mediate K+ uptake. Physiologia Plantarum 139, 220–228.
| Studies on Arabidopsis athak5, atakt1 double mutants disclose the range of concentrations at which AtHAK5, AtAKT1 and unknown systems mediate K+ uptake.Crossref | GoogleScholarGoogle Scholar |

Ruiz-Lau N, Bojórquez-Quintal E, Benito B, Echevarría-Machado I, Sánchez-Cach LA, Medina-Lara MF, Martínez-Estévez M (2016) Molecular cloning and functional analysis of a Na+-insensitive K+ transporter of Capsicum chinense Jacq. Frontiers in Plant Science 7, 1980
| Molecular cloning and functional analysis of a Na⁺-insensitive K⁺ transporter of Capsicum chinense Jacq.Crossref | GoogleScholarGoogle Scholar |

Saddhe AA, Mishra AK, Kumar K (2021) Molecular insights into the role of plant transporters in salt stress response. Physiologia Plantarum 173, 1481–1494.
| Molecular insights into the role of plant transporters in salt stress response.Crossref | GoogleScholarGoogle Scholar |

Saha J, Giri K (2017) Molecular phylogenomic study and the role of exogenous spermidine in the metabolic adjustment of endogenous polyamine in two rice cultivars under salt stress. Gene 609, 88–103.
| Molecular phylogenomic study and the role of exogenous spermidine in the metabolic adjustment of endogenous polyamine in two rice cultivars under salt stress.Crossref | GoogleScholarGoogle Scholar |

Saha J, Gupta K, Gupta B (2013) In silico characterization and evolutionary analyses of CCAAT binding proteins in the lycophyte plant Selaginella moellendorffii genome: a growing comparative genomics resource. Computational Biology and Chemistry 47, 81–88.
| In silico characterization and evolutionary analyses of CCAAT binding proteins in the lycophyte plant Selaginella moellendorffii genome: a growing comparative genomics resource.Crossref | GoogleScholarGoogle Scholar |

Saha J, Gupta K, Gupta B (2014) A new insight into the phylogeny of vascular cryptogams with special reference to Selaginella and Isoetes inferred from nuclear ITS/5.8S rDNA sequences. Journal of Plant Biochemistry and Biotechnology 23, 167–174.
| A new insight into the phylogeny of vascular cryptogams with special reference to Selaginella and Isoetes inferred from nuclear ITS/5.8S rDNA sequences.Crossref | GoogleScholarGoogle Scholar |

Saha J, Brauer EK, Sengupta A, Popescu SC, Gupta K, Gupta B (2015a) Polyamines as redox homeostasis regulators during salt stress in plants. Frontiers in Environmental Science 3, 21
| Polyamines as redox homeostasis regulators during salt stress in plants.Crossref | GoogleScholarGoogle Scholar |

Saha J, Sengupta A, Gupta K, Gupta B (2015b) Molecular phylogenetic study and expression analysis of ATP-binding cassette transporter gene family in Oryza sativa in response to salt stress. Computational Biology and Chemistry 54, 18–32.
| Molecular phylogenetic study and expression analysis of ATP-binding cassette transporter gene family in Oryza sativa in response to salt stress.Crossref | GoogleScholarGoogle Scholar |

Saha J, Giri K, Roy S (2020) Identification and characterization of differentially expressed genes in the rice root following exogenous application of spermidine during salt stress. Genomics 112, 4125–4136.
| Identification and characterization of differentially expressed genes in the rice root following exogenous application of spermidine during salt stress.Crossref | GoogleScholarGoogle Scholar |

Santa-María GE, Rubio F, Dubcovsky J, Rodríguez-Navarro A (1997) The HAK1 gene of barley is a member of a large gene family and encodes a high-affinity potassium transporter. Plant Cell 9, 2281–2289.
| The HAK1 gene of barley is a member of a large gene family and encodes a high-affinity potassium transporter.Crossref | GoogleScholarGoogle Scholar |

Schwarz R, Dayhoff M (1979) Matrices for detecting distant relationships. In ‘Atlas of protein sequences’. (Ed. M Dayhoff) pp. 353–358. (National Biomedical Research Foundation)

Shabala S, Cuin TA (2008) Potassium transport and plant salt tolerance. Physiologia Plantarum 133, 651–669.
| Potassium transport and plant salt tolerance.Crossref | GoogleScholarGoogle Scholar |

Sharma T, Dreyer I, Riedelsberger J (2013) The role of K+ channels in uptake and redistribution of potassium in the model plant Arabidopsis thaliana. Frontiers in Plant Science 4, 224
| The role of K⁺ channels in uptake and redistribution of potassium in the model plant Arabidopsis thaliana.Crossref | GoogleScholarGoogle Scholar |

Shashikala HBM, Chakravorty A, Panday SK, Alexov E (2021) BION-2: predicting positions of non-specifically bound ions on protein surface by a Gaussian-based treatment of electrostatics. International Journal of Molecular Sciences 22, 272
| BION-2: predicting positions of non-specifically bound ions on protein surface by a Gaussian-based treatment of electrostatics.Crossref | GoogleScholarGoogle Scholar |

Shen Y, Shen L, Shen Z, Jing W, Ge H, Zhao J, Zhang W (2015) The potassium transporter OsHAK21 functions in the maintenance of ion homeostasis and tolerance to salt stress in rice. Plant, Cell & Environment 38, 2766–2779.
| The potassium transporter OsHAK21 functions in the maintenance of ion homeostasis and tolerance to salt stress in rice.Crossref | GoogleScholarGoogle Scholar |

Sun Y, Mu C, Zheng H, Lu S, Zhang H, Zhang X, Liu X (2018) Exogenous Pi supplementation improved the salt tolerance of maize (Zea mays L.) by promoting Na+ exclusion. Scientific Reports 8, 16203
| Exogenous Pi supplementation improved the salt tolerance of maize (Zea mays L.) by promoting Na⁺ exclusion.Crossref | GoogleScholarGoogle Scholar |

Tamura K, Nei M, Kumar S (2004) Prospects for inferring very large phylogenies by using the neighbor-joining method. Proceedings of the National Academy of Sciences of the United States of America 101, 11030–11035.
| Prospects for inferring very large phylogenies by using the neighbor-joining method.Crossref | GoogleScholarGoogle Scholar |

Tamura K, Stecher G, Kumar S (2021) MEGA11: Molecular Evolutionary Genetics Analysis version 11. Molecular Biology and Evolution 38, 3022–3027.
| MEGA11: Molecular Evolutionary Genetics Analysis version 11.Crossref | GoogleScholarGoogle Scholar |

Tiwari SP, Fuglebakk E, Hollup SM, Skjærven L, Cragnolini T, Grindhaug SH, Tekle KM, Reuter N (2014) WEBnm@ v2.0: Web server and services for comparing protein flexibility. BMC Bioinformatics 15, 427
| WEBnm@ v2.0: Web server and services for comparing protein flexibility.Crossref | GoogleScholarGoogle Scholar |

Topno NS, Kannan M, Krishna R (2016) Interacting mechanism of ID3 HLH domain towards E2A/E12 transcription factor – an insight through molecular dynamics and docking approach. Biochemistry and Biophysics Reports 5, 180–190.
| Interacting mechanism of ID3 HLH domain towards E2A/E12 transcription factor – an insight through molecular dynamics and docking approach.Crossref | GoogleScholarGoogle Scholar |

Véry A-A, Nieves-Cordones M, Daly M, Khan I, Fizames C, Sentenac H (2014) Molecular biology of K+ transport across the plant cell membrane: what do we learn from comparison between plant species? Journal of Plant Physiology 171, 748–769.
| Molecular biology of K+ transport across the plant cell membrane: what do we learn from comparison between plant species?Crossref | GoogleScholarGoogle Scholar |

Vuosku J, Karppinen K, Muilu-Mäkelä R, Kusano T, Sagor GHM, Avia K, Alakärppä E, Kestilä J, Suokas M, Nickolov K, Hamberg L, Savolainen O, Häggman H, Sarjala T (2018) Scots pine aminopropyltransferases shed new light on evolution of the polyamine biosynthesis pathway in seed plants. Annals of Botany 121, 1243–1256.
| Scots pine aminopropyltransferases shed new light on evolution of the polyamine biosynthesis pathway in seed plants.Crossref | GoogleScholarGoogle Scholar |

Wang Y, Wu WH (2013) Potassium transport and signalling in higher plants. Annual Review of Plant Biology 64, 451–476.
| Potassium transport and signalling in higher plants.Crossref | GoogleScholarGoogle Scholar |

Wang F, Li H, Liu MN, Song H, Han HM, Wang QL, Yin CC, Zhou YC, Qi Z, Shu YY, Lin ZJ (2006) Structural and functional analysis of natrin, a venom protein that targets various ion channels. Biochemical and Biophysical Research Communications 351, 443–448.
| Structural and functional analysis of natrin, a venom protein that targets various ion channels.Crossref | GoogleScholarGoogle Scholar |

Wang M, Zheng Q, Shen Q, Guo S (2013) The critical role of potassium in plant stress response. International Journal of Molecular Sciences 14, 7370–7390.
| The critical role of potassium in plant stress response.Crossref | GoogleScholarGoogle Scholar |

Wang Y, Lü J, Chen D, Zhang J, Qi K, Cheng R, Zhang H, Zhang S (2018) Genome-wide identification, evolution, and expression analysis of the KT/HAK/KUP family in pear. Genome 61, 755–765.
| Genome-wide identification, evolution, and expression analysis of the KT/HAK/KUP family in pear.Crossref | GoogleScholarGoogle Scholar |

Wang D, Liu D, Yuchi J, He F, Jiang Y, Cai S, Li J, Xu D (2020) MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization. Nucleic Acids Research 48, W140–W146.
| MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization.Crossref | GoogleScholarGoogle Scholar |

Wu H, Zhang X, Giraldo JP, Shabala S (2018) It is not all about sodium: revealing tissue specificity and signalling roles of potassium in plant responses to salt stress. Plant and Soil 431, 1–17.
| It is not all about sodium: revealing tissue specificity and signalling roles of potassium in plant responses to salt stress.Crossref | GoogleScholarGoogle Scholar |

Yang T, Zhang S, Hu Y, Wu F, Hu Q, Chen G, Cai J, Wu T, Moran N, Yu L, Xu G (2014) The role of a potassium transporter OsHAK5 in potassium acquisition and transport from roots to shoots in rice at low potassium supply levels. Plant Physiology 166, 945–959.
| The role of a potassium transporter OsHAK5 in potassium acquisition and transport from roots to shoots in rice at low potassium supply levels.Crossref | GoogleScholarGoogle Scholar |

Zhang H, Xiao W, Yu W, Yao L, Li L, Wei J, Li R (2018) Foxtail millet SiHAK1 excites extreme high-affinity K+ uptake to maintain K+ homeostasis under low K+ or salt stress. Plant Cell Reports 37, 1533–1546.
| Foxtail millet SiHAK1 excites extreme high-affinity K+ uptake to maintain K+ homeostasis under low K+ or salt stress.Crossref | GoogleScholarGoogle Scholar |

Zhang M, Liang X, Wang L, Cao Y, Song W, Shi J, Lai J, Jiang C (2019) A HAK family Na+ transporter confers natural variation of salt tolerance in maize. Nature Plants 5, 1297–1308.
| A HAK family Na⁺ transporter confers natural variation of salt tolerance in maize.Crossref | GoogleScholarGoogle Scholar |

Zhang Y, Shi X, Lin S, Wang J, Tang M, Huang J, Gao T, Zhang H, Song Z (2022) Heterologous expression of the MiHAK14 homologue from Mangifera indica enhances plant tolerance to K+ deficiency and salinity stress in Arabidopsis. Plant Growth Regulation 98, 39–49.
| Heterologous expression of the MiHAK14 homologue from Mangifera indica enhances plant tolerance to K+ deficiency and salinity stress in Arabidopsis.Crossref | GoogleScholarGoogle Scholar |

Zuckerkandl E, Pauling L (1965) Evolutionary divergence and convergence in proteins. In ‘Evolving genes and proteins’. (Eds V Bryson, HJ Vogel) pp. 97–166. (Academic Press)