Kochian Lab for Plant Mineral Nutrition and Abiotic Stress Research
Kochian LV, Pineros MA, Liu J, Magalhaes JV. 2015. Plant adaptation to acid soils: The molecular basis for crop aluminum resistance. Annual. Rev. Plant Biol. 66: (In Press). Hufnagel B, de Sousa SM, Assis L, Guimaraes CT, Leiser W, Azevedo GC, Negri B, Larson BG, Shaff JE, Pastina MM, Barros BA, Weltzien E,. Rattunde FFW, Viana JH, Clark RT, Falcão A, Gazaffi R, Garcia AAF, Schaffert RE, Kochian LF, Magalhaes JV. 2014. Duplicate and conquer: Multiple homologs of PHOSPHORUS-STARVATION TOLERANCE1 enhance phosphorus acquisition and sorghum performance on low-phosphorus soils. Plant Physiol 166: 159-167. Zhai Z, Gayomba SR, Jung H, Vimalakumari NK, Pineros M, Craft E, Rutzke M, Danku J, Lahner JB, Punshon T, Guerinot ML, Salt DE, Kochian LV,Vatamaniuk OK. 2014. OPT3 is a phloem-specific iron transporter that is essential for shoot-to-root iron signaling and redistribution of iron and cadmium in Arabidopsis thaliana. Plant Cell 226: 2249-2264. Guimaraes CT, Simoes CC, Pastina MM, Maron LG, Magalhaes JV, Vasconcellos RCC, Guimaraes LJM, Lana UGP, Tinoco CFS, Noda RW, Jardim-Belicuas SN, Kochian LV, Alves VMC, Parentoni SN. 2014. Genetic dissection of al tolerance QTLs in the maize genome by high density SNP scan. BMC Genomics. 15:153-167. Li JY, Liu J, Dong D, Jia X, McCouch SR, Kochian LV. 2014. Natural variation in Nramp (NRAT1) expression and function that play a key role in rice aluminum tolerance. Proc Natl Acad Sci USA 111: 6503-6508. Milner MJ, Mitani-Ueno M, Yamaji N, Yokosho K, Craft E, Fei Z, Ebbs S, Zambrano MC, Ma JF, Kochian LV. 2014. Root and shoot transcriptome analysis of two ecotypes of Noccaea caerulescens uncovers the role of NcNramp1 in Cd hyperaccumulation. Plant J 78: 398-410. Milner MJ, Pence NS, Liu J, Kochian LV. 2014. Identification of a novel pathway nvolving a GATA transcription factor in yeast and possibly plant Zn uptake and homeostasis. J. Integrative Plant Biol 56: 271-280. Liu JL, Piñeros MA, Kochian LV. 2014. The role of aluminum sensing and signaling in plant aluminum resistance. J. Integrative Plant Biol 56: 221-230. Wang X, Wang Y, Piñeros MA, Wang Z, Wang W, Li C, Wu Z,. Kochian LV, Wu P. 2014. Phosphate transporters OsPHT1;9 and OsPHT1;10 are involved in phosphate uptake in rice. Plant Cell Envir 37: 1159-1170. Caniato FB, Hamblin MT, Guimaraes CT, Zhang Z, Schaffert RE, Kochian LV, Magalhaes JV. 2014. Association mapping provides insights into the origin and the fine structure of the sorghum aluminum tolerance locus, AltSB. PloS One 9(1): e87438. Ligaba A, Dreyer I, Margaryan A, Schneider DJ, Kochian LV, Piñeros MA. 2013. Functional, structural and phylogenetic analysis of domains underlying the Al-sensitivity of the aluminium-activated malate/anion transporter, TaALMT1. Plant J 76: 766-780. Sivaguru M*, Liu JL*, Kochian LV. 2013. Targeted expression of SbMATE in the root distal transition zone is responsible for sorghum aluminum resistance. Plant J 76: 297-07. (*Co-first authors). Schroeder JI, Delhaize E, Frommer WB, Guerinot ML, Harrison MJ, Herrera-Estrella L, Horie T, Kochian LV, Munns R, Nishizawa NK, Tsay Y-F, Sanders D. 2013. Using membrane transporters to improve crops for sustainable food production. Nature 497: 60 - 66. Liang C, Piñeros MA, Tian J, Yao Z, Sun L, Liu J, Shaff JE, Coluccio A, Kochian LV, Liao H. 2013. Low pH, aluminum and phosphorus coordinately regulate malate exudation through GmALMT1 to improve soybean adaptation to acid soils. Plant Physiol 161: 1347-1361. Maron LG, Guimarães CT, Kirst M, Albert PS, Birchler JA, Bradbury P, Buckler ES, Coluccio AE, Danilova TV, Kudrna D, Magalhaes JV, Piñeros MA, Schatz MC, Wing R, Kochian LV. 2013. Aluminum tolerance is associated with higher MATE1 gene copy-number in maize. Proc Natl Acad Sci USA 110: 5241-5246. Fang S, Clark RT, Zheng Y, Iyer-Pascuzzi AS, Weitz JS, Kochian LV, Edelsbrunner H, Liao H, Benfey PN. 2013. Evidence for genotype-dependent recognition by rice roots. Proc Natl Acad Sci USA 110: 2670-2675. Janaina O. Melo, Ubiraci G. P. Lana, Miguel A. Piñeros, Vera M. C. Alves, Claudia T. Guimarães, Jiping Liu, Yi Zheng, Silin Zhong, Zhangjun Fei, Lyza G. Maron, Robert E. Schaffert, Leon V. Kochian and Jurandir V. Magalhaes. 2013. Incomplete transfer of accessory loci influencing SbMATE expression underlies genetic background effects for aluminum tolerance in sorghum. Plant J 73: 276-288. Milner MJ, Seamon J, Craft E, Kochian LV. 2013. Transport properties of members of the ZIP family in plants and their role in Zn and Mn homeostasis. J Exp Bot 64: 369-381. Clark RT, Famoso AN, Zhao K, Shaff JE, Craft JE, Bustamante CD, McCouch SR, Aneshansley DJ, Kochian LV. 2013. High-throughput 2D root system phenotyping platform facilitates genetic analysis of root growth and development. Plant Cell Envir 36: 454-466. Milner MJ, Craft E, Yamaji N, Koyama E, Ma JF, Kochian LV. 2012. Characterization of the high affinity Zn transporter from Noccaea caerulescens, NcZNT1, and dissection of its promoter for its role in Zn uptake and hyperaccumulation. New Phytol 195: 113-123. Liu J., Luo X., Shaff J., Liang C., Jia X., Li Z., Magalhaes J., Kochian L.V. 2012. A promoter swap strategy between the AtALMT and AtMATE genes increased Arabidopsis aluminum resistance and improved carbon use efficiency for aluminum resistance. Plant J. 71: 327-337. Ligaba A, Maron LG, Shaff JE, Kochian LV, Pineros MA. 2012. Maize ZmALMT2 is a root anion transporter that mediates constitutive root malate efflux. Plant Cell Environ.35: 1185-1200. Yang XY, Yang JL, Zhou Y, Piñeros MA, Kochian LV, Li GX, Zheng SJ. 2011. A de novo synthesis citrate transporter, Vigna umbellata multidrug and toxic compound extrusion, implicated in Al-activated citrate efflux in rice bean (Vigna umbellata) root apex. Plant Cell Envir 34: 2138-2148. Famoso AN, Zhao K, Clark RT, Tung C-W, Wright MH, Bustamante C, Kochian LV, McCouch SR. 2011. Genetic architecture of aluminum tolerance in rice (O. sativa) determined through genome-wide association analysis and QTL mapping. PLoS Genetics 7(8): e1002221. Caniato FF, Guimarães CT, Hamblin M, Billot C, Rami J-F, Hufnagel B, Kochian LV, Liu J, Garcia AAF, Hash CT, Ramu P, Mitchell S, Kresovich S, Oliveira AC, de Avellar G, Borém A, Glaszmann J-C, Schaffert RE, Magalhaes JV. 2011 The relationship between population structure and aluminum tolerance in cultivated sorghum. PLoS ONE 6(6): e20830. doi:10.1371/journal.pone.0020830. Milner MJ, Ueno D, Yamaji N, Yokosho K, Zambrano MC, Kaskie M, Ebbs SD, Ma JF, Kochian LV. 2011. Elevated expression of TcHMA3 plays a key role in the extreme Cd tolerance exhibited by a Cd-hyperaccumulating ecotype of Thlaspi caerulescens. Plant Journal 66: 852-862. Clark RT, MacCurdy RB, Jung JJ, Shaff JE, McCouch SR, Aneshansley DJ, Kochian LV. 2011. 3-Dimensional root phenotyping with a novel imaging and software platform. Plant Physiol 156: 455-465. Famoso AN, Clark RT, Shaff JE, Craft E, McCouch SR, Kochian LV. 2010. Development of a novel aluminum tolerance phenotyping platform used for comparisons of cereal aluminum tolerance and investigations into rice aluminum tolerance mechanisms. Plant Physiol153: 1678-1691. Shaff JE, Schultz BE, Craft EJ, Clark RT, Kochian LV. 2010. GEOCHEM-EZ: A Chemical Speciation Program with Greater Power and Flexibility. Plant Soil 330:207-214. Maron LG, Piñeros MA, Guimarães CT, Magalhaes JV, Pleiman JF, Mao C, Shaff JE, Belicuas SNJ, Kochian LV. 2010. Two functionally distinct members of the MATE (multidrug and toxic compound extrusion) family of transporters potentially underlie two major Al tolerance QTL in maize. Plant Journal 61: 728-740. Ligaba A, Kochian LV, Pineros MA. 2009. Phosphorylation at S384 regulates the activity of the TaALMT1 malate transporter that underlies aluminum resistance in wheat. Plant Journal 60: 411-423. Liu J, Magalhaes JV, Shaff JE, Kochian LV. 2009. Aluminum-activated citrate and malate transporters from the MATE and ALMT families function independently to confer Arabidopsis aluminum tolerance. Plant Journal 57: 389-399. Klein MA, Sekimoto H, Milner MJ and LV Kochian. 2008. Investigation of heavy metal hyperaccumulation at the cellular level: development and characterization of Thlaspi caerulescens suspension cell lines. Plant Physiol 147: 2006-2016. Pineros MA, Cancado GMA, Kochian LV. 2008. Novel properties of the wheat aluminum tolerance organic acid transporter (TaALMT1) revealed by electrophysiological characterization in Xenopus oocytes: Functional and structural implications. Plant Physiol 147: 2131-2146. Maron LG, Kirst M, Mao C, Milner MJ, Menossi M and LV. Kochian. 2008. Transcriptional profiling of aluminum toxicity and tolerance responses in maize roots. New Phytol 179: 116-128. Pineros MA, Cancado GMA, Maron LG, Lyi MS, Menossi M, Kochian LV. 2008. Not all ALMT1-type transporters mediate aluminum-activated organic acid responses: The case of ZmALMT1. Plant Journal 53: 352-367. Magalhaes JM, Liu J, Guimares CT, Lana UGP, Alves VM, Wang Y-H, Schaffert RE, Hoekenga OA, Shaff JE, Pineros MA, Klein PE, and LV Kochian. 2007. A gene in the multidrug and toxic compound extrusion (MATE) family confers aluminum tolerance in sorghum.. Nature Genetics 39: 1156-1161. Papoyan A, Pineros MA, Kochian LV. 2007. Plant Cd2+ and Zn2+ status effects on root and shoot heavy metal accumulation in Thlaspi caerulescens. New Phytol 175: 51-58 Liao H, Wan H, Shaff JE, Wang X, Yan X, and Kochian LV. 2006. Phosphorus and aluminum interactions in soybean in relation to Al tolerance: Exudation of specific organic acids from different regions of the intact root system. Plant Physiol 141: 674-684. Caniato FF, Guimarães CT, Schaffert RE, Alves VMC, Kochian LV, Borém A, Klein PE, Magalhaes JV. 2006. Genetic diversity for aluminum tolerance in sorghum. Theor Applied Genetics 114: 863-867. Küpper H, Seib LO, Sivaguru M, Hoekenga OA, and LV Kochian. 2007. A novel method for quantitative in situ hybridization in plants reveals regulation of a zinc transporter in the Cd/Zn hyperaccumulator Thlaspi caerulescens (Ganges). Plant Journal 50: 159-175. Kuepper H, and LV Kochian. 2010. Transcriptional regulation of metal transport genes and mineral nutrition during acclimation to cadmium and zinc in the Cd/Zn hyperaccumulator, Thlaspi caerulescens (Ganges population). New Phytologist 185: 114-129. Caniato FF, Guimarães CT, Hamblin M, Billot C, Rami J-F, Hufnagel B, Kochian LV, Liu J, Garcia AAF, Hash CT, Ramu P, Mitchell S, Kresovich S, Oliveira AC, de Avellar G, Borém A, Glaszmann J-C, Schaffert RE, Magalhaes JV. 2011 The relationship between population structure and aluminum tolerance in cultivated sorghum. PLoS ONE 6(6): e20830. doi:10.1371/journal.pone.0020830 Janaina O. Melo, Ubiraci G. P. Lana, Miguel A. Piñeros , Vera M. C. Alves, Claudia T. Guimarães, Jiping Liu, Yi Zheng, Silin Zhong, Zhangjun Fei, Lyza G. Maron, Robert E. Schaffert, Leon V. Kochian and Jurandir V. Magalhaes. 2013. Incomplete transfer of accessory loci influencing SbMATE expression underlies genetic background effects for Aluminum tolerance in sorghum. Plant J 73: 276-288 Liang C, Piñeros MA, Tian J, Yao Z, Sun L, Liu J, Shaff JE, Coluccio A, Kochian LV, Liao H. 2013. Low pH, aluminum and phosphorus coordinately regulate malate exudation through GmALMT1 to improve soybean adaptation to acid soils. Plant Physiol 161: 1347-1361. Sivaguru M*, Liu JL*, Kochian LV. 2013. Targeted expression of SbMATE in the root distal transition zone is responsible for sorghum aluminum resistance. Plant J 76: 297-307. (*Co-first authors). Ligaba A, Dreyer I, Margaryan A, Schneider DJ, Kochian LV, Piñeros MA. 2013. Functional, structural and phylogenetic analysis of domains underlying the Al-sensitivity of the aluminium-activated malate/anion transporter, TaALMT1. Plant J 76: 766-780. Caniato FB, Hamblin MT, Guimaraes CT, Zhang Z, Schaffert RE, Kochian LV, Magalhaes JV. 2014. Association mapping provides insights into the origin and the fine structure of the sorghum aluminum tolerance locus, AltSB. PloS One 9(1): e87438 Liu JL, Piñeros MA, Kochian LV. 2014. The role of aluminum sensing and signaling in plant aluminum resistance. J. Integrative Plant Biol 56: 221-23. Milner MJ, Mitani-Ueno M, Yamaji N, Yokosho K, Craft E, Fei Z, Ebbs S, Zambrano MC, Ma JF, Kochian LV. 2014. Root and shoot transcriptome analysis of two ecotypes of Noccaea caerulescens uncovers the role of NcNramp1 in Cd hyperaccumulation. Plant J 78: 398-410. Li JY, Liu J, Dong D, Jia X, McCouch SR, Kochian LV. 2014. Natural variation in Nramp (NRAT1) expression and function that play a key role in rice aluminum tolerance. Proc Natl Acad Sci USA 111: 6503-6508. Zhai Z, Gayomba SR, Jung H, Vimalakumari NK, Pineros M, Craft E, Rutzke M, Danku J, Lahner JB, Punshon T, Guerinot ML, Salt DE, Kochian LV,Vatamaniuk OK. 2014. OPT3 is a phloem-specific iron transporter that is essential for shoot-to-root iron signaling and redistribution of iron and cadmium in Arabidopsis thaliana. Plant Cell 226: 2249-2264. Hufnagel B, de Sousa SM, Assis L, Guimaraes CT, Leiser W, Azevedo GC, Negri B, Larson BG, Shaff JE, Pastina MM, Barros BA, Weltzien E,. Rattunde FFW, Viana JH, Clark RT, Falcão A, Gazaffi R, Garcia AAF, Schaffert RE, Kochian LF, Magalhaes JV. 2014. Duplicate and conquer: Multiple homologs of PHOSPHORUS-STARVATION TOLERANCE1 enhance phosphorus acquisition and sorghum performance on low-phosphorus soils. Plant Physiol 166: 159-167. Schroeder JI, Delhaize E, Frommer WB, Guerinot ML, Harrison MJ, Herrera-Estrella L, Horie T, Kochian LV, Munns R, Nishizawa NK, Tsay Y-F, Sanders D. 2013. Using membrane transporters to improve crops for sustainable food production. Nature 497: 60 - 66. Maron LG, Guimarães CT, Kirst M, Albert PS, Birchler JA, Bradbury P, Buckler ES, Coluccio AE, Danilova TV, Kudrna D, Magalhaes JV, Piñeros MA, Schatz MC, Wing R, Kochian LV. 2013. Aluminum tolerance is associated with higher MATE1 gene copy-number in maize. Proc Natl Acad Sci USA 110: 5241-5246. Clark RT, Famoso AN, Zhao K, Shaff JE, Craft EJ, Bustamante CD, McCouch SR, Aneshansley DJ, Kochian LV. 2013. High-throughput 2D root system phenotyping platform facilitates genetic analysis of root growth and development. Plant Cell Envir 36: 454-466. Ligaba A, Maron LG, Shaff JE, Kochian LV, Pineros MA. 2012. Maize ZmALMT2 is a root anion transporter that mediates constitutive root malate efflux. Plant Cell Environ.35: 1185-1200. Liu J., Luo X., Shaff J., Liang C., Jia X., Li Z., Magalhaes J., Kochian L.V. 2012. A promoter swap strategy between the AtALMT and AtMATE genes increased Arabidopsis aluminum resistance and improved carbon use efficiency for aluminum resistance. Plant J. 71: 327-337. Milner MJ, Craft E, Yamaji N, Koyama E, Ma JF, Kochian LV. 2012. Characterization of the high affinity Zn transporter from Noccaea caerulescens, NcZNT1, and dissection of its promoter for its role in Zn uptake and hyperaccumulation. New Phytol 195: 113-123. Famoso AN, Zhao K, Clark RT, Tung C-W, Wright MH, Bustamante C, Kochian LV, McCouch SR. 2011. Genetic architecture of aluminum tolerance in rice (O. sativa) determined through genome-wide association analysis and QTL mapping. PLoS Genetics 7(8): e1002221. Clark RT, MacCurdy RB, Jung JJ, Shaff JE, McCouch SR, Aneshansley DJ, Kochian LV. 2011. 3-Dimensional root phenotyping with a novel imaging and software platform. Plant Physiol 156: 455-465. Milner MJ, Ueno D, Yamaji N, Yokosho K, Zambrano MC, Kaskie M, Ebbs SD, Kochian LV, Ma JF. 2011. Elevated expression of TcHMA3 plays a key role in the extreme Cd tolerance exhibited by a Cd-hyperaccumulating ecotype of Thlaspi caerulescens. Plant Journal 66: 852-862. Famoso AN, Clark RT, Shaff JE, Craft E, McCouch SR, Kochian LV. 2010. Development of a novel aluminum tolerance phenotyping platform used for comparisons of cereal aluminum tolerance and investigations into rice aluminum tolerance mechanisms. Plant Physiol153: 1678-1691. Maron LG, Piņeros MA, Guimarães CT, Magalhaes JV, Pleiman JF, Mao C, Shaff JE, Belicuas SNJ, Kochian LV. 2010. Two functionally distinct members of the MATE (multidrug and toxic compound extrusion) family of transporters potentially underlie two major Al tolerance QTL in maize. Plant Journal 61: 728-740. Shaff JE, Schultz BE, Craft EJ, Clark RT, Kochian LV. 2010. GEOCHEM-EZ: A Chemical Speciation Program with Greater Power and Flexibility. Plant Soil 330:207-214. Liu J, Magalhaes JV, Shaff JE, Kochian LV. 2009. Aluminum-activated citrate and malate transporters from the MATE and ALMT families function independently to confer Arabidopsis aluminum tolerance. Plant Journal 57: 389-399. Pineros MA, Cancado GMA, Maron LG, Lyi MS, Menossi M, Kochian LV. 2008. Not all ALMT1-type transporters mediate aluminum-activated organic acid responses: The case of ZmALMT1. Plant Journal 53: 352-367. Maron LG, Kirst M, Mao C, Milner MJ, Menossi M and LV. Kochian. 2008. Transcriptional profiling of aluminum toxicity and tolerance responses in maize roots. New Phytol 179: 116-128. Piņeros MA, Cancado GMA, Kochian LV. 2008. Novel properties of the wheat aluminum tolerance organic acid transporter (TaALMT1) revealed by electrophysiological characterization in Xenopus oocytes: Functional and structural implications. Plant Physiol 147: 2131-2146. Magalhaes JM, Liu J, Guimares CT, Lana UGP, Alves VM, Wang Y-H, Schaffert RE, Hoekenga OA, Shaff JE, Pineros MA, Klein PE, and LV Kochian. 2007. A gene in the multidrug and toxic compound extrusion (MATE) family confers aluminum tolerance in sorghum. Nature Genetics 39: 1156-1161. Hoekenga OA, Maron LG, Piņeros MA, Cancado GMA, Shaff JE, Kobayashi Y, Ryan PR, Dong B, Delhaize E, Sasaki T, Matsumoto H, Koyama H, and LV Kochian. (2006). AtALMT1 (At1g08430) is a novel, essential factor for aluminum tolerance in Arabidopsis thaliana and encodes an aluminum-activated malate transporter. Proc Natl Acad Sci USA 106: 9738-9743 Piņeros M, Carvalho-Alves VM, Shaff JE, Manslank H and Kochian LV (2004) Aluminum resistance in maize can not be solely explained by root organic acid exudation: A comparative physiological study. Plant Physiol. 137, 231-241 Kochian LV, Hoekenga OA, and Piņeros MA (2004) How do crop plants tolerate acid soils? Mechanisms of aluminium tolerance and phosphorous efficiency. Annu. Rev. Plant Physiol. Plant Mol. Biol. Vol 55, 459-493