References
- Bewley JD, Bradford KJ, Hilhorst HWM, Nonogaki H (2013) Seeds: physiology of development, germination and dormancy, 3rd edn. Springer, New York
- Bibikova TN, Jacob T, Dahse I, Gilroy S (1998) Localized changes in apoplastic and cytoplasmic pH are associated with root hair development in Arabidopsis thaliana. Development 125:2925-2934
- Bose J, Babourina O, Shabala S, Rengel Z (2010) Aluminum-dependent dynamics of ion transport in Arabidopsis: specificity of low pH and aluminium responses. Physiol Plant 139:401-412
- Bouche N, Fromm H (2004) GABA in plants: just a metabolite? Trends Plant Sci 9:110-115 https://doi.org/10.1016/j.tplants.2004.01.006
- Buer CS, Sukumar P, Muday GK (2006) Ethylene modulates flavonoid accumulation and gravitropic responses in roots of Arabidopsis. Plant Physiol 140:1384-1396 https://doi.org/10.1104/pp.105.075671
- Cai Z, Wang B, Xu M, Zhang H, He X, Zhang L, Gao S (2015) Intensified soil acidification from chemical N fertilization and prevention by manure in an 18-year field experiment in the red soil of southern China. J Soil Sediment 15:260-270 https://doi.org/10.1007/s11368-014-0989-y
- Conesa A, Gotz S, Garcia-Gomez JM, Terol J, Talon M, Robles M (2005) Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21:3674-3676 https://doi.org/10.1093/bioinformatics/bti610
- Ding ZJ, Yan JY, Xu XY, Li GX, Zheng SJ (2013) WRKY46 functions as a transcriptional repressor of ALMT1, regulating aluminuminduced malate secretion in Arabidopsis. Plant J 76:825-835 https://doi.org/10.1111/tpj.12337
- Dixon RA, Liu C, Jun JH (2013) Metabolic engineering of anthocyanins and condensed tannins in plants. Curr Opin Biotech 24:329-335 https://doi.org/10.1016/j.copbio.2012.07.004
- Fan W, Lou HQ, Gong YL, Liu MY, Cao MJ, Liu Y, Yang JL, Zheng SJ (2015) Characterization of an inducible C2H2-type zinc finger transcription factor VuSTOP1 in rice bean (Vigna umbellata) reveals differential regulation between low pH and Al tolerance mechanisms. New Phytol 208:456-468 https://doi.org/10.1111/nph.13456
- Fan W, Lou HQ, Yang JL, Zheng SJ (2016) The roles of stop1-like transcription factors in aluminum and proton tolerance. Plant Signal Behav 11:e1131371 https://doi.org/10.1080/15592324.2015.1131371
- Fang XZ, Tian WH, Liu XX, Lin XY, Jin CW, Zheng SJ (2016) Alleviation of proton toxicity by nitrate uptake specifically depends on nitrate transporter 1.1 in Arabidopsis. New Phytol 211:149-158 https://doi.org/10.1111/nph.13892
- Furukawa J, Yamaji N, Wang H, Mitani N, Murata Y, Sato K, Katsuhara M, Takeda K, Ma JF (2007) An aluminum-activated citrate transporter in barley. Plant Cell Physiol 48:1081-1091 https://doi.org/10.1093/pcp/pcm091
- Futterer O, Agnelov A, Lieseqang H, Gottschalk G, Schleper C, Schepers B, Dock C, Antranikian G, Liebl W (2004) Genome sequence of Picrophilu storridus and its implications for life around pH 0. Proc Natl Acad Sci USA 101:9091-9096 https://doi.org/10.1073/pnas.0401356101
- Garay-Arroyo A, Ortiz-Moreno E, Sanchez MDLP, Murphy AS, Garcia-Ponce B, Marsch-Martinez N, Folter S, Corvera-Poire A, Jaimes-Miranda F, Pacheco-Escobedo MA et al (2013) The mads transcription factor xal2/agl14 modulates auxin transport during arabidopsis root development by regulating pin expression. EMBO J 32:2884-2895 https://doi.org/10.1038/emboj.2013.216
-
Garcia-oliveira AL, Benito C, Prieto P, Menezes RDA, Rodrigues-Pousada C, Guedes-Pinto H, Martins-Lopes P (2013) Molecular characterization of TaSTOP1 homoeologues and their response to aluminium and proton
$(H^{+})$ toxicity in bread wheat (Triticum aestivum l.). BMC Plant Biol 13:1-13 https://doi.org/10.1186/1471-2229-13-1 - Gondor OK, Janda T, Soos V, Pal M, Majlath I, Adak MK, Balazs E, Szalai G (2016) Salicylic acid induction of flavonoid biosynthesis pathways in wheat varies by treatment. Front Plant Sci 7:1447
- Gracas JP, Ruiz-Romero R, Figueiredo LD, Mattiello L, Peres LEP, Vitorello VA (2016) Root growth restraint can be an acclimatory response to low pH and is associated with reduced cell mortality: a possible role of class III peroxidases and NADPH oxidases. Plant Biol 18:658-668 https://doi.org/10.1111/plb.12443
- Guo JH, Liu XJ, Zhang Y, Shen JL, Han WX, Zhang WF, Christie P, Goulding KWT, Vitousek PM, Zhang FS (2010) Significant acidification in major Chinese croplands. Science 327:1008-1010 https://doi.org/10.1126/science.1182570
- Hoekenga OA, Maron LG, Pineros MA, Cancado GMA, Shaff J, Kobayashi Y, Ryan PR, Dong B, Delhaize E, Sasaki T et al (2006) AtALMT1, which encodes a malate transporter, is identified as one of several genes critical for aluminum tolerance in Arabidopsis. Proc Natl Acad Sci USA 103:9738-9743 https://doi.org/10.1073/pnas.0602868103
- Huang CF, Yamaji N, Mitani N, Yano M, Nagamura Y, Ma JF (2009) A bacterial-type ABC transporter is involved in aluminum tolerance in rice. Plant Cell 21:655-667 https://doi.org/10.1105/tpc.108.064543
- Huang J, Zhang W, Mo J, Wang S, Liu J, Chen H (2015) Urbanization in China drives soil acidification of Pinus massoniana forests. Sci Rep 5:13512 https://doi.org/10.1038/srep13512
- Ikka T, Kobayashi Y, Luchi S, Sakurai N, Shibata D, Kobayashi M, Koyama H (2007) Natural variation of Arabidopsis thaliana reveals that aluminum resistance and proton resistance are controlled by different genetic factors. Theor Appl Genet 115:709-719 https://doi.org/10.1007/s00122-007-0602-5
- Janda T, Gondor OK, Yordanova R, Szalai G, Pal M (2014) Salicylic acid and photosynthesis: signalling and effects. Acta Physiol Plant 36:2537-2546 https://doi.org/10.1007/s11738-014-1620-y
-
Kobayashi Y, Kobayashi Y, Watanabe T, Shaff JE, Ohta H, Kochian LV, Wagatsuma T, Kinraide TB, Koyama H (2013) Molecular and physiological analysis of
$Al^{3+}$ and$H^{+}$ rhizotoxicities at moderately acidic conditions. Plant Physiol 163:180-192 https://doi.org/10.1104/pp.113.222893 - Kobayashi Y, Ohyama Y, Kobayashi Y, Ito H, Iuchi S, Fujita M, Zhao CR, Tanveer T, Ganesan M, Kobayashi M et al (2014) STOP2 activates transcription of several genes for Al- and low pH-tolerance that are regulated by STOP1 in Arabidopsis. Mol Plant 7:311-322 https://doi.org/10.1093/mp/sst116
- Kochian LV, Hoekenga OA, Pineros MA (2004) How do crop plants tolerate acid soils? Mechanisms of aluminum tolerance and phosphorous efficiency. Ann Rev Plant Biol 55:459-493 https://doi.org/10.1146/annurev.arplant.55.031903.141655
- Kochian LV, Pineros MA, Hoekenga OA (2005) The physiology, genetics and molecular biology of plant aluminum resistance and toxicity. Plant Soil 274:175-195 https://doi.org/10.1007/s11104-004-1158-7
- Kopittke PM, Moore KL, Lombi E, Gianoncelli A, Ferguson BJ, Blamey FPC, Menzies NW, Nicholson TM, McKenna BA, Wang P et al (2015) Identification of the primary lesion of toxic aluminum in plant roots. Plant Physiol 167:1402-1411 https://doi.org/10.1104/pp.114.253229
- Koyama H, Toda T, Yotoka S, Dawair Z, Hara T (1995) Effects of aluminium and pH on root growth and cell viability in Arabidopsis thaliana strain Landsberg in hydroponic culture. Plant Cell Physiol 36:201-205
- Koyama H, Toda T, Hara T (2001) Brief exposure to low-pH stress causes irreversible damage to the growing root in Arabidopsis thaliana: pectin-Ca interaction may play an important role in proton rhizotoxicity. J Exp Bot 52:361-368
- Krapp A, Berthom R, Orsel M, Mercey-Boutet S, Yu A, Castaings L, Elftieh S, Major H, Renou JP, Daniel-Vedele F (2011) Arabidopsis roots and shoots show distinct temporal adaptation patterns toward nitrogen starvation. Plant Physiol 157:1255-1282 https://doi.org/10.1104/pp.111.179838
- Kreps JA, Wu Y, Chang HS, Zhu T, Wang X, Harper JF (2002) Transcriptome changes for Arabidopsis in response to salt, osmotic, and cold stress. Plant Physiol 130:2129-2141 https://doi.org/10.1104/pp.008532
- Lager I, Andreasson O, Dunbar TL, Andreasson E, Escobar MA, Rasmusson AG (2010) Changes in external pH rapidly alter plant gene expression and modulate auxin and elicitor responses. Plant Cell Environ 33:1513-1528
- Larsen PB, Geisler MJ, Jones CA, Williams KM, Cancel JD (2005) ALS3 encodes a phloem-localized ABC transporter-like protein that is required for aluminum tolerance in Arabidopsis. Plant J 41:353-363
- Larsen PB, Cancel J, Rounds M, Ochoa V (2007) Arabidopsis ALS1 encodes a root tip and stele localized half type ABC transporter required for root growth in an aluminum toxic environment. Planta 225:1447-1458 https://doi.org/10.1007/s00425-006-0452-4
- Lescot M, Dehais P, Moreau Y, De Moor B, Rouze P, Rombauts S (2002) PlantCARE: a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. Nucleic Acids Res 30:325-327 https://doi.org/10.1093/nar/30.1.325
-
Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the
$2^{-{\Delta}{\Delta}CT}$ method. Methods 25:402-408 https://doi.org/10.1006/meth.2001.1262 - Lopes MA, Larkins BA (1993) Endosperm origin, development, and function. Plant Cell 5:1383-1399
- Luchi S, Koyama H, Iuchi A, Kobayashi Y, Kitabayashi S, Kobayashi Y, Ikka T, Hirayama T, Shinozaki K, Kobayashi M (2007) Zinc finger protein STOP1 is critical for proton tolerance in Arabidopsis and coregulates a key gene in aluminum tolerance. Proc Natl Acad Sci USA 104:9900-9905 https://doi.org/10.1073/pnas.0700117104
- Magalhaes JV, Liu J, Guimaraes CT, Lana UG, Alves VM, Wang YH, Schaffert RE, Hoekenga OA, Pineros MA, Shaff JE et al (2007) A gene in the multidrug and toxic compound extrusion (MATE) family confers aluminum tolerance in sorghum. Nat Genet 39:1156-1161 https://doi.org/10.1038/ng2074
- Mao QQ, Guan MY, Lu KX, Du ST, Fan SK, Ye YQ, Lin XY, Jin CW (2014) Inhibition of nitrate transporter 1.1-controlled nitrate uptake reduces cadmium uptake in Arabidopsis. Plant Physiol 166:934-944 https://doi.org/10.1104/pp.114.243766
- Monshausen GB, Bibikova TN, Messerli MA, Shi C, Gilroy S (2007) Oscillations in extracellular pH and reactive oxygen species modulate tip growth of Arabidopsis root hairs. Proc Natl Acad Sci USA 104:20996-21001 https://doi.org/10.1073/pnas.0708586104
- Petrussa E, Braidot E, Zancani M, Peresson C, Bertolini A, Patui S, Angelo V (2013) Plant flavonoids-biosynthesis, transport and involvement in stress responses. Int J Mol Sci 14:14950-14973 https://doi.org/10.3390/ijms140714950
- Rangel AF, Mobin M, Rao IM, Horst WJ, (2005) Proton toxicity interferes with the screening of common bean (Phaseolus vulgaris L.) genotypes for aluminium resistance in nutrient solution. J Plant Nutr Soil Sci 168(4):607-616 https://doi.org/10.1002/jpln.200520509
- Reyes-Diaz M, Ulloa-Inostroza EM, Gonzalez-Villagra J, Ivanov AG, Kurepin LV (2016) Phytohormonal responses to soil acidity in plants. Plant hormones under challenging environmental factors. Springer, Netherlands, pp 133-155
- Reyna-Llorens I, Corrales I, Poschenrieder C, Barcelo J, Cruz-Ortega R (2015) Both aluminum and ABA induce the expression of an ABC-like transporter gene (FeALS3) in the Al-tolerant species fagopyrum esculentum. Environ Exper Bot 111:74-82 https://doi.org/10.1016/j.envexpbot.2014.11.005
- Rice KC, Herman JS (2012) Acidification of earth: an assessment across mechanisms and scales. Appl Geochem 27:1-14 https://doi.org/10.1016/j.apgeochem.2011.09.001
- Ryan PR, Raman H, Gupta S, Horst WJ, Delhaize E (2009) A second mechanism for aluminum resistance in wheat relies on the constitutive efflux of citrate from roots. Plant Physiol 149:340-351 https://doi.org/10.1104/pp.108.129155
- Sasaki T, Yamamoto Y, Ezaki B, Katsuhara M, Ahn SJ, Ryan PR, Delhaize E, Matsumoto H (2004) A wheat gene encoding an aluminum-activated malate transporter. Plant J 37:645-653 https://doi.org/10.1111/j.1365-313X.2003.01991.x
- Sasaki T, Tsuchiya Y, Ariyoshi M, Ryan PR, Yamamoto Y (2016) A chimeric protein of aluminum-activated malate transporter generated from wheat and Arabidopsis shows enhanced response to trivalent cations. Biochim Biophys Acta 1858:1427-1435 https://doi.org/10.1016/j.bbamem.2016.03.026
- Sawaki Y, Iuchi S, Kobayashi Y, Kobayashi Y, Ikka T, Sakurai N, Fujita M, Shinozaki K, Shibata D, Kobayashi M et al (2009) STOP1 regulates multiple genes that protect Arabidopsis from proton and aluminum toxicities. Plant Physiol 150:281-294 https://doi.org/10.1104/pp.108.134700
- Shen H, Ligaba A, Yamaguchi M, Osawa H, Shibata K, Yan X, Matsumoto H (2004) Effect of K-252a and abscisic acid on the efflux of citrate from soybean roots. J Exp Bot 55:663-671 https://doi.org/10.1093/jxb/erh058
- Tanimoto E, Fujii S, Yamamoto R, Inanaga S (2000) Measurement of viscoelastic properties of root cell walls affected by low pH in lateral roots of Pisumsativum L. Plant Soil 226:21-28 https://doi.org/10.1023/A:1026460308158
- Vitorello VA, Capaldi FR, Stefanuto VA (2005) Recent advances in aluminum toxicity and resistance in higher plants. Braz J Plant Physiol 17:129-143 https://doi.org/10.1590/S1677-04202005000100011
- Wu P, Ma L, Hou X, Wang M, Wu Y, Liu F, Deng XW (2003) Phosphate starvation triggers distinct alterations of genome expression in Arabidopsis roots and leaves. Plant Physiol 13:1260-1271
- Xia J, Yamaji N, Kasai T, Ma JF (2011) Plasma membrane-localized transporter for aluminum in rice. Proc Natl Acad Sci USA 107:18381-18385
- Yamaji N, Huang CF, Nagao S, Yano M, Sato Y, Nagamura Y, Ma JF (2009) A zinc finger transcription factor ART1 regulates multiple genes implicated in aluminum tolerance in rice. Plant Cell 21:3339-3349 https://doi.org/10.1105/tpc.109.070771
- Yan D, Catalina D, Leoveanu C, Nambara E (2014) The functions of the endosperm during seed germination. Plant Cell Physiol 55:1521-1533 https://doi.org/10.1093/pcp/pcu089
- Yang JL, Zheng SJ, He YF, Matsumoto H (2005) Aluminium resistance requires resistance to acid stress: a case study with spinach that exudes oxalate rapidly when exposed to Al stress. J Exp Bot 56:1197-1203 https://doi.org/10.1093/jxb/eri113
- Yeh CM, Ohme-Takagi M (2015) Transcription factors involved in acid stress responses in plants. Nucleus 58:191-197 https://doi.org/10.1007/s13237-016-0159-2
- Zhang H, Wu Z, Suo Y, Wang J, Zheng L, Wang Y (2017) Gene expression and flavonol biosynthesis are induced by ultraviolet-B and salt stresses in Reaumuria trigyna. Biol Plant 61:246-254 https://doi.org/10.1007/s10535-017-0725-8
- Zhou J, Fang X, Liu XM, He Y, Xu JM, Brookes PC (2014) Effects of nitrogen fertilizer on the acidification of two typical acid soils in South China. J Soils Sediment 14:415-422 https://doi.org/10.1007/s11368-013-0695-1
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