Skip to main content
SpringerLink
Log in

Genome-wide analysis of the MATE gene family in potato

  • Original Article
  • Published:
Molecular Biology Reports Aims and scope Submit manuscript

Abstract

The multidrug and toxic compound extrusion (MATE) protein family is a newly discovered family of secondary transporters that extrude metabolic waste and a variety of antibiotics out of the cell using an electrochemical gradient of H+ or Na+ across the membrane. The main function of MATE gene family is to participate in the process of plant detoxification and morphogenesis. The genome-wide analysis of the MATE genes in potato genome was conducted. At least 48 genes were initially identified and classified into six subfamilies. The chromosomal localization of MATE gene family showed that they could be distributed on 11 chromosomes except chromosome 9. The number of amino acids is 145–616, the molecular weight of proteins is 15.96–66.13 KD, the isoelectric point is 4.97–9.17, and they were located on the endoplasmic reticulum with having 4–13 transmembrane segments. They contain only two parts of the exons and UTR without introns. Some members of the first subfamily of potato MATE gene family are clustered with At2g04070 and they may be related to the transport of toxic compounds such as alkaloids and heavy metal. The function of the members of the second subfamily may be similar to that of At3g23560, which is related to tetramethylammonium transport. Some members of the third subfamily are clustered with At3g59030 and they may be involved in the transport of flavonoids. The fifth subfamily may be related to the transport of iron ions. The function of the sixth subfamily may be similar to that of At4g39030, which is related to salicylic acid transport. There are three kinds of conserved motifs in potato MATE genes, including the motif 1, motif 2, and motif 3. Each motif has 50 amino acids. The number of each motif is different in the gene sequence, of which 45 MATE genes contain at least a motif, but there is no motif in ST0015301, ST0045283, and ST0082336. These results provide a reference for further research on the function of potato MATE genes.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3
Fig. 4

Similar content being viewed by others

References

  1. Li J, Xie C (2016) Production technology and management measures of forestry seedling. Modern Hort 2(23):82. (in Chinese)

    CAS  Google Scholar 

  2. Guo X (2016) Genome-wide identification and analysis of ALDH and MATE gene families in Gossypium. Chinese Academy of Agricultrual Sciences, Beijing. (in Chinese)

  3. Dai LY, Liu XL, Xiao YH, Wang GL (2007) Recent advances in cloning and characterization of disease resistance genes in rice. J Integr Plant Biol 49(1):112–119

    Article  CAS  Google Scholar 

  4. Liu G, Sanchez-Fernandez R, Li ZS, Rea PA (2001) Enhanced multi-specificity of Arabidopsis vacuolar multidrug resistance associated protein type ATP binding cassette transporter, AtMRP2. J Biol Chem 276(12):8648–8656

    Article  CAS  Google Scholar 

  5. Zgurskaya HI, Nikaido H (2000) Multidrug resistance mechanisms: drug efflux across two membranes. Mol Microbiol 37(2):219–225

    Article  CAS  Google Scholar 

  6. Dixon DP, Cummins L, Cole DJ, Edwards R (1998) Glutathione mediated detoxification systems in plants. Curr Opin Plant Biol 1(3):258–266

    Article  CAS  Google Scholar 

  7. Putman M, Vn Veen HW, Koninus WN (2000) Molecular properties of bacterial multidrug transporters. Microbial Mol Biol Rev 64(4):672–693

    Article  CAS  Google Scholar 

  8. Remy E, Duque P (2014) Beyond cellular detoxification: a plethora of physiological roles for MDR transporter homologs in plants. Front Physiol 5:201

    Article  Google Scholar 

  9. Brown MH, Paulsen IT, Skurray RA (1999) The multidrug efflux protein NorM is a prototype of a new family of transporters. Mol Microbiol 31(1):394–395

    Article  CAS  Google Scholar 

  10. Dimroth P (1997) Primary sodium ion translocating enzymes. Biochim Biophys Acta 1318(1–2):11–51

    Article  CAS  Google Scholar 

  11. Maloney PC (1992) The molecular and cell biology of anion transport by bacteria. Bio Essays 14(11):757–762

    CAS  Google Scholar 

  12. Chen S, Sánchez-Fernández R, Lyver ER, Dancis A, Rea PA (2007) Functional characterization of AtATM1, At ATM2 and AtATM3, a subfamily of Arabidopsis half-molecule ATP-binding cassette transporters implicated in iron homeostasis. J Biol Chem 282(29):21561–21571

    Article  CAS  Google Scholar 

  13. Zhao H, Li Y (2012) ABC transporters in plants. Hai Xia Ke Xue 2:13–16 (in Chinese)

    Google Scholar 

  14. Leng F, Wei Q, Wang Y, Jing Y, Sun S, Ma H, Wang Y, Ma J (2017) Cloning and bioinformatics analysing of RND transporters family (rnd-1) in Acidithiobacillus ferrooxidans. Genom App Biol 36(6):2410–2416. (in Chinese)

    Google Scholar 

  15. Bay DC, Turner RJ (2009) Diversity and evolution of the small multidrug resistance protein family. BMC Evol Biol 9:140

    Article  Google Scholar 

  16. Schuldiner S. Emr E (2009) A model for studying evolution and mechanism of ion-coupled transporters. Biochim Biophys Acta 1794(5):748–762

    Article  CAS  Google Scholar 

  17. Saier MH (1999) Genome archeology leading to the characterization and classification of transport proteins. Curr Opin Microbiol 2(5):555–561

    Article  CAS  Google Scholar 

  18. Saier MH Jr, Yen MR, Noto K, Tamang DG, Elkan C (2009) The transporter classification database: recent advances. Nucleic Acids Res 37(Database issue):D274–D278

    Article  CAS  Google Scholar 

  19. Morita Y, Kodama K, Shiota S, Mine T, Kataoka A, Mizushima T, Tsuchiya T (1998) NorM, a putative multidrug efflux protein, of vibrio parahaemolyticus and its homolog in Escherichia coli. Antimicrob Agents Chemother 42(7):1778–1782

    Article  CAS  Google Scholar 

  20. Morita Y, Kataoka A, Shiota S, Mizushima T, Tsuchiya T (2000) NorM of vibrio parahaemolyticus is an Na(+)-driven multidrugefflux pump. J Bacteriol 182(23):6694–6697

    Article  CAS  Google Scholar 

  21. Pao SS, Paulsen IT, Saier MH Jr (1998) Major facilitator superfamily. Microbiol Mol Biol Rev 62(1):1–34

    CAS  PubMed  PubMed Central  Google Scholar 

  22. Chung YJ, Krueger C, Metzgar D, Saier MH Jr (2001) Size comparisons amongintegral membrane transport protein homologues in bacteria, ar-chaea, and eucarya. J Bacteriol 183(3):1012–1021

    Article  CAS  Google Scholar 

  23. Diener AC, Gaxiola RA, Fink GR (2001) Arabidopsis ALF5, a mul-tidrug efflux transporter gene family member, confers resistance to toxins. Plant Cell 13(7):1625–1638

    Article  CAS  Google Scholar 

  24. Debeaujon I, Peeters AJ, Leon-Kloosterziel KM, Koornneef M (2001) The TRANSPARENT TESTA12 gene of Arabidopsis encodesa multidrug secondary transporter-like protein required for flavonoid sequestration in vacuoles of the seed coat endothelium. Plant Cell 13(4):853–871

    Article  Google Scholar 

  25. Maualhaes JV (2010) How a microbial drug transporter became essential for crop cultivation on acid soils: aluminium tolerance conferred by the multidrug and toxic compound extrusion (MATE) family. Ann Bot 106(1):199–203

    Article  Google Scholar 

  26. Moriyama Y, Hiasa M, Matstimoto T, Omote H (2008) Multi-drug and toxic compound extrusion (MATF)-type proteins as anchor transporters for the excretion of metabolic waste products and xenobiotics. Xenobiotica 38(7–8):1107–1118

    Article  CAS  Google Scholar 

  27. Yu S, Wei L, Xie H, Zhang J (2014) Progress on MATE transporters of stress resistance in rice. Fujian J Agric Sci 9(4):398–405. (in Chinese)

    Google Scholar 

  28. Lu M, Radchenko M, Symersky J, Nie R, Guo Y (2013) Structural insights into H+-coupled multidrug extrusion by a MATE transporter. Nat Struct Mol Biol 20(11):1310–1317

    Article  CAS  Google Scholar 

  29. Otsuka M, Matsumoto T, Morimoto R, Arioka S, Omote H, Moriyama Y (2005) Ahuman transporter protein that mediates the final excretion step for toxic organic canons. Proc Natl Acad Sci USA 102(50):17923–17928

    Article  CAS  Google Scholar 

  30. Shiomi N, Fukuda H, Fukuda Y, Murata K, Kimura A (1991) Nucleotide sequence and characterization of a Gene conferring resistance to ethionine in yeast Saccharomyces cerevisiae. J Ferment Bioeng 71(4):211–215

    Article  CAS  Google Scholar 

  31. Omote H (2006) The MATE proteins as fundamental transporters of metabolic and xenobiotic organic cations. Trends Pharmacol Sci 27(11):587–593

    Article  CAS  Google Scholar 

  32. Li L, He Z, Pandey GK, Tsuchiya T, Luan S (2002) Functional cloning and characterization of a plant efflux carrier for multidrugand heavy metal detoxification. J Biol Chem 277(7):5360–5368

    Article  CAS  Google Scholar 

  33. Xie X, Cheng T, Wang G, Duan J, Xia Q (2011) ABC and MATE transporters of plant and their roles in membrane transport of secondary metabolites. Plant Physiol J 47(8):752–758. (in Chinese)

    CAS  Google Scholar 

  34. Rogers EE, Guerinot ML (2002) FRD3, a member of the multidrugand toxin efflux family, controls iron deficiency responses in Arabidopsis. Plant Cell 14(8):1787–1799

    Article  CAS  Google Scholar 

  35. Yokosho K, Yamaji N, Ueno D, Mitani N, Ma JF (2009) OsFRDL1 is a citrate transporter required for efficient translocation of iron in rice. Plant Physiol 149(1):297–305

    Article  CAS  Google Scholar 

  36. Zhang J, Xu H, Zhou X, Chen J, Wang Y, Peng X (2010) Expression analysis of OsMATE in rice under abiotic stresses. J Trop Subtrop Bot 18(4):435–439. (in Chinese)

    CAS  Google Scholar 

  37. Tiwari M, Sharma D, Singh M, Tripathi RD, Trivedi PK (2014) Expression of OsMATE1 and OsMATE2 alters development, stress responses and pathogen susceptibility in Arabidopsis. Sci Rep 4:1–12

    Google Scholar 

  38. Zhang T, Zhang S, Pei L, Yu T, Chen M, Li L, Zhou Y, Ma Y, Xu Q, Xu Z (2014) Genome-wide analysis of ANK gene family and expression pattern of the ANK25 gene in snap bean. J Plant Genet Resour 5(6):1340–1348. (in Chinese)

    Google Scholar 

  39. Nawrath C, Heck S, Parinthawong N, Metraux JP (2002) EDS5, anessential component of salicylic acid-dependent signaling for disease resistance in Arabidopsis, is a member of the MATE transporter family. Plant Cell 14(1):275–286

    Article  CAS  Google Scholar 

  40. Li R, Li J, Li S, Qin G, Novak O, Pencik A, Ljung K, Aoyama T, Liu J, Murphy A, Gu H, Tsuge T, Qu LJ (2014) ADPI affects plant architecture by regulating local auxin biosynthesis. PLoS Genet 10(1):e1003954

    Article  Google Scholar 

  41. Zhang Y, Wang Q, Li X, Sun T, Gong D, Yang M, Liu G (2015) Analysis and functional prediction of MATE gene family in common tobacco (Nicotiana tabacum). J Plant Genet Resour 16(6):1307–1314. (in Chinese)

    Google Scholar 

  42. Shen Z, Xu L, Chen W, Wu N, Cai Y, Lin Y, Gao J (2016) Bioinformatic analysis of the multidrug and toxic compound extrusion gene family in Gossypium arboreum and Gossypium raimondii, and expression of orthologs in Gossypium hirsutum. Cotton Sci 28(3):215–226. (in Chinese)

    Google Scholar 

  43. Zhao J, Dixon RA (2009) MATE transporters facilitate vacuolar uptake of epicatechin 3′-O-glucoside for proanthocyanidin biosynthesis in Medicago truncatula and Arabidopsis. Plant Cell 21(8):2323–2340

    Article  CAS  Google Scholar 

  44. Marinova K, Pource L, Weder B, Schwarz M, Barron D, Routaboul JM, Debeaujon I, Klein M (2007) The Arabidopsis MATE transporter TT12 acts as a vacuolar flavonoid/H+-antiporter active in proanthocyanidin-accumulating cells of the seed coat. Plant Cell 19(6):2023–2038

    Article  CAS  Google Scholar 

  45. Serrano M, Wang B, Aryal B, Garcion C, Abou-Mansour E, Heck S, Geisler M, Mauch F, Nawrath C, Metraux JP (2013) Export of salicylic acid from the chloroplast requires the multidrug and toxin extrusion-like transporter EDS5. Plant Physiol 162(4):1815–1821

    Article  CAS  Google Scholar 

Download references

Acknowledgements

This study was supported by grants from the National Natural Science Foundation of China (Grant Nos. 31660352, 31660350) and the Science & Technology Development Fund of Guangxi Academy of Agricultural Sciences (Grant Nos. Guinongke2017JZ11 and Guinongke2017JZ21).

Author information

Authors and Affiliations

  1. College of Agronomy, Guangxi University, Nanning, 530004, People’s Republic of China

    Yinqiu Li & Long-Fei He

  2. Cash Crops Research Institute, Guangxi Academy of Agricultural Sciences, Nanning, 530007, People’s Republic of China

    Huyi He

Authors
  1. Yinqiu Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Huyi He
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Long-Fei He
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding authors

Correspondence to Huyi He or Long-Fei He.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Li, Y., He, H. & He, LF. Genome-wide analysis of the MATE gene family in potato. Mol Biol Rep 46, 403–414 (2019). https://doi.org/10.1007/s11033-018-4487-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11033-018-4487-y

Keywords

Search

Navigation