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Biologia

pp 1–22 | Cite as

Biodiversity of methylotrophic microbial communities and their potential role in mitigation of abiotic stresses in plants

  • Manish Kumar
  • Divjot Kour
  • Ajar Nath YadavEmail author
  • Raghvendra Saxena
  • Pankaj Kumar Rai
  • Anurag Jyoti
  • Rajesh Singh Tomar
Review
  • 21 Downloads

Abstract

Methylotrophic bacterial community is very important group of bacteria utilizing reduced carbon compounds and plays significant role in plant growth promotion (PGP), crop yield and soil fertility for sustainable agriculture. Abiotic and biotic stresses are very important factors affecting PGP in agriculture. A vast number of microbial communities play an important role in abiotic stress tolerance. The PGP methylotrophic microbes have been reported well enough to mitigate different types of biotic and abiotic stresses. The abiotic stress tolerance was well documented by several methylotrophic bacterial communities such as Hyphomicrobium, Methylarcula, Methylobacillus, Methylobacterium, Methylocapsa, Methylocella, Methyloferula, Methylohalomonas, Methylomonas, Methylophilus, Methylopila, Methylosinus, Methylotenera, Methylovirgula and Methylovorus. The abiotic stress tolerance ability of different methylotrophs and their colonization in different parts of plants under severe low temperature, high temperature, drought and salt stress conditions have been investigated in various studies. The methylotrophic communities help in proliferation of plant directly through solubilization of phosphorus, potassium and zinc, production of phytohormones viz., auxins and cytokinins; production of Fe-chelating compound, biological nitrogen fixation and ACC-deaminase activities or indirectly through productions of ammonia, siderophores and secondary metabolites. The auxin and cytokinin secreted by methylotrophs influence seed germination and plant root growth and help plants to endure water stress. On the plant surface, the abundant methylotrophs exude osmo-protectants such as sugars and alcohols which ultimately help to protect the plants from desiccation and excessive radiations. The utilisation of these potent methylotrophic strains may facilitate proper crop production, PGP by ameliorating abiotic stresses.

Keywords

Abiotic stress Biodiversity Methylotrophs Plant growth promotion PPFMs (Pink Pigmented Facultative Methylotrophs) 

Notes

Acknowledgements

We are very thankful to Amity University, Gwalior and Hon’ble Dr. Ashok K. Chauhan, Founder President, Amity University for their continuous support.

Compliance with ethical standards

Conflict of interest

All authors declare that they have no conflicts of interest to this work.

References

  1. Abeles F, Morgan P, Saltveit M (1992) Ethylene in plant biology, 2nd edn. Academic Press, New York.  https://doi.org/10.1016/C2009-0-03226-7 CrossRefGoogle Scholar
  2. Agafonova N, Kaparullina E, Doronina N, Trotsenko YA (2013) Phosphate-solubilizing activity of aerobic methylobacteria. Microbiology 82:864–867.  https://doi.org/10.1134/S0026261714010020 CrossRefGoogle Scholar
  3. Alibrandi P, Cardinale M, Rahman MM, Strati F, Ciná P, de Viana ML, Giamminola EM, Gallo G, Schnell S, De Filippo C (2018) The seed endosphere of Anadenanthera colubrina is inhabited by a complex microbiota, including Methylobacterium spp. and Staphylococcus spp. with potential plant-growth promoting activities. Plant Soil 422:81–99.  https://doi.org/10.1007/s11104-017-3182-4 CrossRefGoogle Scholar
  4. Amin A, Ahmed I, Salam N, Kim B-Y, Singh D, Zhi X-Y, Xiao M, Li W-J (2017) Diversity and distribution of thermophilic bacteria in hot springs of Pakistan. Microb Ecol 74:116–127.  https://doi.org/10.1007/s00248-017-0930-1 CrossRefPubMedGoogle Scholar
  5. Anesti V, Vohra J, Goonetilleka S, McDonald IR, Sträubler B, Stackebrandt E, Kelly DP, Wood AP (2004) Molecular detection and isolation of facultatively methylotrophic bacteria, including Methylobacterium podarium sp. nov., from the human foot microflora. Environ Microbiol 6:820–830.  https://doi.org/10.1111/j.1462-2920.2004.00623.x CrossRefPubMedGoogle Scholar
  6. Aslam Z, Lee CS, Kim K-H, Im W-T, Ten LN, Lee S-T (2007) Methylobacterium jeotgali sp. nov., a non-pigmented, facultatively methylotrophic bacterium isolated from jeotgal, a traditional Korean fermented seafood. Int J Syst Evol Microbiol 57:566–571.  https://doi.org/10.1099/ijs.0.64625-0 CrossRefPubMedGoogle Scholar
  7. Bakker AW, Schippers B (1987) Microbial cyanide production in the rhizosphere in relation to potato yield reduction and Pseudomonas SPP-mediated plant growth-stimulation. Soil Biol Biochem 19:451–457.  https://doi.org/10.1016/0038-0717(87)90037-X CrossRefGoogle Scholar
  8. Balachandar D, Raja P, Sundaram S (2008) Genetic and metabolic diversity of pink-pigmented facultative methylotrophs in phyllosphere of tropical plants. Braz J Microbiol 39:68–73.  https://doi.org/10.1590/S1517-838220080001000017 CrossRefPubMedPubMedCentralGoogle Scholar
  9. Bassalik K (1913) Uber die Verarbeitung der Oxalsaure durch Bacillus extorquens n. sp. J Wiss Bot 53:255Google Scholar
  10. Boddey R, De Oliveira O, Urquiaga S, Reis V, De Olivares F, Baldani V, Döbereiner J (1995) Biological nitrogen fixation associated with sugar cane and rice: contributions and prospects for improvement. Plant Soil 174:195–209.  https://doi.org/10.1007/BF0003224 CrossRefGoogle Scholar
  11. Bodrossy L, Holmes EM, Holmes AJ, Kovács KL, Murrell JC (1997) Analysis of 16S rRNA and methane monooxygenase gene sequences reveals a novel group of thermotolerant and thermophilic methanotrophs, Methylocaldum gen. nov. Arch Microbiol 168:493–503.  https://doi.org/10.1007/s002030050527 CrossRefPubMedGoogle Scholar
  12. Bodrossy L, Kovács KL, McDonald IR, Murrell JC (1999) A novel thermophilic methane-oxidising γ-Proteobacterium. FEMS Microbiol Lett 170:335–341.  https://doi.org/10.1111/j.1574-6968.1999.tb13392.x CrossRefGoogle Scholar
  13. Boylan SA, Redfield AR, Brody MS, Price CW (1993) Stress-induced activation of the sigma B transcription factor of Bacillus subtilis. J Bacteriol 175:7931–7937.  https://doi.org/10.1128/jb.175.24.7931-7937.1993 CrossRefPubMedPubMedCentralGoogle Scholar
  14. Bric JM, Bostock RM, Silverstone SE (1991) Rapid in situ assay for indoleacetic acid production by bacteria immobilized on a nitrocellulose membrane. Appl Environ Microbiol 57:535–538 Available at: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC182744/. Accessed 17 January 2019
  15. Brown ME, Burlingham SK (1968) Production of plant growth substances by Azotobacter chroococcum. J Gen Microbiol 53:135–144.  https://doi.org/10.1099/00221287-53-1-135 CrossRefPubMedGoogle Scholar
  16. Brown E, Caviness C, Brown D (1985) Response of selected soybean cultivars to soil moisture deficit 1. Agron J 77:274–278.  https://doi.org/10.2134/agronj1985.00021962007700020022x CrossRefGoogle Scholar
  17. Cao Y-R, Wang Q, Jin R-X, Tang S-K, Jiang Y, He W-X, Lai H-X, Xu L-H, Jiang C-L (2011) Methylobacterium soli sp. nov. a methanol-utilizing bacterium isolated from the forest soil. Antonie Van Leeuwenhoek 99:629–634.  https://doi.org/10.1007/s10482-010-9535-0 CrossRefPubMedGoogle Scholar
  18. Cappucino JC, Sherman N (1992) Nitrogen cycle. In: Microbiology: a laboratory manual, 4th edn. Benjamin/Cumming Pub. Co., New York, pp 311–312Google Scholar
  19. Chanratana M, Han GH, Roy Choudhury A, Sundaram S, Halim MA, Krishnamoorthy R, Kang Y, Sa T (2017) Assessment of Methylobacterium oryzae CBMB20 aggregates for salt tolerance and plant growth promoting characteristics for bio-inoculant development. AMB Express 7:208.  https://doi.org/10.1186/s13568-017-0518-7 CrossRefPubMedPubMedCentralGoogle Scholar
  20. Chaudhry V, Baindara P, Pal VK, Chawla N, Patil PB, Korpole S (2016) Methylobacterium indicum sp. nov., a facultative methylotrophic bacterium isolated from rice seed. Syst Appl Microbiol 39:25–32.  https://doi.org/10.1016/j.syapm.2015.12.006 CrossRefPubMedGoogle Scholar
  21. Chinnadurai C, Balachandar D, Sundaram S (2009) Characterization of 1-aminocyclopropane-1-carboxylate deaminase producing methylobacteria from phyllosphere of rice and their role in ethylene regulation. World J Microbiol Biotechnol 25:1403–1411.  https://doi.org/10.1007/s11274-009-0027-1 CrossRefGoogle Scholar
  22. Collet S, Reim A, Ho A, Frenzel P (2015) Recovery of paddy soil methanotrophs from long term drought. Soil Biol Biochem 88:69–72.  https://doi.org/10.1016/j.soilbio.2015.04.016 CrossRefGoogle Scholar
  23. Corpe WA (1985) A method for detecting methylotrophic bacteria on solid surfaces. J Microbiol Meth 3:215–221.  https://doi.org/10.1016/0167-7012(85)90049-1 CrossRefGoogle Scholar
  24. Daneshian J, Zare D (2005) Diversity for resistance drought on soybean. J Agric Sci 1:23–50Google Scholar
  25. Dedysh SN, Liesack W, Khmelenina VN, Suzina NE, Trotsenko YA, Semrau JD, Bares AM, Panikov NS, Tiedje JM (2000) Methylocella palustris gen. nov., sp. nov., a new methane-oxidizing acidophilic bacterium from peat bogs, representing a novel subtype of serine-pathway methanotrophs. Int J Syst Evol Microbiol 50:955–969.  https://doi.org/10.1099/00207713-50-3-955 CrossRefPubMedGoogle Scholar
  26. Dedysh SN, Khmelenina VN, Suzina NE, Trotsenko YA, Semrau JD, Liesack W, Tiedje JM (2002) Methylocapsa acidiphila gen. nov., sp. nov., a novel methane-oxidizing and dinitrogen-fixing acidophilic bacterium from Sphagnum bog. Int J Syst Evol Microbiol 52:251–261.  https://doi.org/10.1099/00207713-52-1-251 CrossRefPubMedGoogle Scholar
  27. Dedysh SN, Berestovskaya YY, Vasylieva LV, Belova SE, Khmelenina VN, Suzina NE, Trotsenko YA, Liesack W, Zavarzin GA (2004) Methylocella tundrae sp. nov., a novel methanotrophic bacterium from acidic tundra peatlands. Int J Syst Evol Microbiol 54:151–156.  https://doi.org/10.1099/ijs.0.02805-0 CrossRefPubMedGoogle Scholar
  28. Dedysh SN, Didriksen A, Danilova OV, Belova SE, Liebner S, Svenning MM (2015a) Methylocapsa palsarum sp. nov., a methanotroph isolated from a subArctic discontinuous permafrost ecosystem. Int J Syst Evol Microbiol 65:3618–3624.  https://doi.org/10.1099/ijsem.0.000465 CrossRefPubMedGoogle Scholar
  29. Dedysh SN, Naumoff DG, Vorobev AV, Kyrpides N, Woyke T, Shapiro N, Crombie AT, Murrell JC, Kalyuzhnaya MG, Smirnova AV, Dunfield PF (2015b) Draft genome sequence of Methyloferula stellata AR4, an obligate Methanotroph possessing only a soluble methane monooxygenase. Genome Announc 3:e01555–e01514.  https://doi.org/10.1128/genomeA.01555-14 CrossRefPubMedPubMedCentralGoogle Scholar
  30. Doronina NV, Trotsenko YA, Krausova VI, Boulygina ES, Tourova TP (1998) Methylopila capsulata gen. nov., sp. nov., a novel non-pigmented aerobic facultatively methylotrophic bacterium. Int J Syst Evol Microbiol 48:1313–1321.  https://doi.org/10.1099/00207713-48-4-1313 CrossRefGoogle Scholar
  31. Doronina NV, Kudinova LV, Trotsenko YA (2000a) Methylovorus mays sp. nov.: a new species of aerobic, obligately methylotrophic bacteria associated with plants. Microbiology 69:599–603.  https://doi.org/10.1007/bf02756815 CrossRefGoogle Scholar
  32. Doronina NV, Trotsenko YA, Tourova TP (2000b) Methylarcula marina gen. nov., sp. nov. and Methylarcula terricola sp. nov.: novel aerobic, moderately halophilic, facultatively methylotrophic bacteria from coastal saline environments. Int J Syst Evol Microbiol 50:1849–1859.  https://doi.org/10.1099/00207713-50-5-1849 CrossRefPubMedGoogle Scholar
  33. Doronina NV, Trotsenko YA, Tourova TP, Kuznetsov BB, Leisinger T (2000c) Methylopila helvetica sp. nov. and Methylobacterium dichloromethanicum sp. nov. — novel aerobic facultatively methylotrophic bacteria utilizing dichloromethane. Syst Appl Microbiol 23:210–218.  https://doi.org/10.1016/S0723-2020(00)80007-7 CrossRefPubMedGoogle Scholar
  34. Doronina NV, Trotsenko YA, Kuznetsov BB, Tourova TP, Salkinoja-Salonen MS (2002) Methylobacterium suomiense sp. nov. and Methylobacterium lusitanum sp. nov., aerobic, pink-pigmented, facultatively methylotrophic bacteria. Int J Syst Evol Microbiol 52:773–776.  https://doi.org/10.1099/ijs.0.02014-0 CrossRefPubMedGoogle Scholar
  35. Doronina N, Darmaeva T, Trotsenko Y (2003a) Methylophaga natronica sp. nov., a new alkaliphilic and moderately halophilic, restricted-facultatively methylotrophic bacterium from soda lake of the southern Transbaikal region. Syst Appl Microbiol 26:382–389.  https://doi.org/10.1078/072320203322497419 CrossRefPubMedGoogle Scholar
  36. Doronina NV, Darmaeva TD, Trotsenko YA (2003b) Methylophaga alcalica sp. nov., a novel alkaliphilic and moderately halophilic, obligately methylotrophic bacterium from an east Mongolian saline soda lake. Int J Syst Evol Microbiol 53:223–229.  https://doi.org/10.1099/ijs.0.02267-0 CrossRefPubMedGoogle Scholar
  37. Doronina NV, Trotsenko YA, Kolganova TV, Tourova TP, Salkinoja-Salonen MS (2004) Methylobacillus pratensis sp. nov., a novel non-pigmented, aerobic, obligately methylotrophic bacterium isolated from meadow grass. Int J Syst Evol Microbiol 54:1453–1457.  https://doi.org/10.1099/ijs.0.02956-0 CrossRefPubMedGoogle Scholar
  38. Doronina N, Lee TD, Ivanova E, Trotsenko YA (2005) Methylophaga murata sp. nov.: a haloalkaliphilic aerobic methylotroph from deteriorating marble. Microbiology 74:440–447 Available at: https://www.ncbi.nlm.nih.gov/pubmed/16211855. Accessed 17 January 2019
  39. Doronina NV, Kaparullina EN, Trotsenko YA (2011) Methylovorus menthalis, a novel species of aerobic obligate methylobacteria associated with plants. Microbiology 80:713.  https://doi.org/10.1134/s0026261711050043 CrossRefGoogle Scholar
  40. Doronina NV, Poroshina MN, Kaparullina EN, Ezhov VA, Trotsenko YA (2013) Methyloligella halotolerans gen. nov., sp. nov. and Methyloligella solikamskensis sp. nov., two non-pigmented halotolerant obligately methylotrophic bacteria isolated from the Ural saline environments. Syst Appl Microbiol 36:148–154.  https://doi.org/10.1016/j.syapm.2012.12.001 CrossRefPubMedGoogle Scholar
  41. Dunfield PF, Khmelenina VN, Suzina NE, Trotsenko YA, Dedysh SN (2003) Methylocella silvestris sp. nov., a novel methanotroph isolated from an acidic forest cambisol. Int J Syst Evol Microbiol 53:1231–1239.  https://doi.org/10.1099/ijs.0.02481-0 CrossRefPubMedGoogle Scholar
  42. Dunfield PF, Belova SE, Vorob a, ev AV, Cornish SL, Dedysh SN (2010) Methylocapsa aurea sp. nov., a facultative methanotroph possessing a particulate methane monooxygenase, and emended description of the genus Methylocapsa. Int J Syst Evol Microbiol 60:2659–2664.  https://doi.org/10.1099/ijs.0.020149-0 CrossRefPubMedGoogle Scholar
  43. Edwards U, Rogall T, Blöcker H, Emde M, Böttger EC (1989) Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 17:7843–7853 Available at: https://www.ncbi.nlm.nih.gov/pubmed/2798131 Accessed 17 January 2019
  44. Eevers N, Van Hamme JD, Bottos EM, Weyens N, Vangronsveld J (2015) Draft genome sequence of Methylobacterium radiotolerans, a DDE-degrading and plant growth-promoting strain isolated from Cucurbita pepo. Genome Announc 3:e00488–e00415.  https://doi.org/10.1128/genomeA.00488-15 CrossRefPubMedPubMedCentralGoogle Scholar
  45. Egamberdieva D, Wirth S, Alqarawi AA, Abd_Allah E (2015) Salt tolerant Methylobacterium mesophilicum showed viable colonization abilities in the plant rhizosphere. Saudi J Biol Sci 22:585–590.  https://doi.org/10.1016/j.sjbs.2015.06.029 CrossRefPubMedPubMedCentralGoogle Scholar
  46. Ekimova GA, Fedorov DN, Tani A, Doronina NV, Trotsenko YA (2018) Distribution of 1-aminocyclopropane-1-carboxylate deaminase and d-cysteine desulfhydrase genes among type species of the genus Methylobacterium. Antonie Van Leeuwenhoek 111:1723–1734.  https://doi.org/10.1007/s10482-018-1061-5 CrossRefPubMedGoogle Scholar
  47. Fasim F, Ahmed N, Parsons R, Gadd GM (2002) Solubilization of zinc salts by a bacterium isolated from the air environment of a tannery. FEMS Microbiol Lett 213:1–6.  https://doi.org/10.1111/j.1574-6968.2002.tb11277.x CrossRefPubMedGoogle Scholar
  48. Gaidenko TA, Price CW (1998) General stress transcription factor ςB and sporulation transcription factor ςH each contribute to survival of Bacillus subtilis under extreme growth conditions. J Bacteriol 180:3730–3733 Available at: https://www.ncbi.nlm.nih.gov/pubmed/9658024 Accessed 17 January 2019
  49. Gallego V, García MT, Ventosa A (2005a) Methylobacterium hispanicum sp. nov. and Methylobacterium aquaticum sp. nov., isolated from drinking water. Int J Syst Evol Microbiol 55:281–287.  https://doi.org/10.1099/ijs.0.63319-0 CrossRefPubMedGoogle Scholar
  50. Gallego V, García MT, Ventosa A (2005b) Methylobacterium isbiliense sp. nov., isolated from the drinking water system of Sevilla, Spain. Int J Syst Evol Microbiol 55:2333–2337.  https://doi.org/10.1099/ijs.0.63773-0 CrossRefPubMedGoogle Scholar
  51. Gallego V, García MT, Ventosa A (2005c) Methylobacterium variabile sp. nov., a methylotrophic bacterium isolated from an aquatic environment. Int J Syst Evol Microbiol 55:1429–1433.  https://doi.org/10.1099/ijs.0.63597-0 CrossRefPubMedGoogle Scholar
  52. Gallego V, García MT, Ventosa A (2006) Methylobacterium adhaesivum sp. nov., a methylotrophic bacterium isolated from drinking water. Int J Syst Evol Microbiol 56:339–342.  https://doi.org/10.1099/ijs.0.63966-0 CrossRefPubMedGoogle Scholar
  53. Gourion B, Francez-Charlot A, Vorholt JA (2008) PhyR is involved in the general stress response of Methylobacterium extorquens AM1. J Bacteriol 190:1027–1035  https://doi.org/10.1128/JB.01483-07 CrossRefPubMedGoogle Scholar
  54. Govorukhina NI, Trotsenko YA (1991) Methylovorus, a new genus of restricted Facultatively methylotrophic Bacteria. Int J Syst Evol Microbiol 41:158–162.  https://doi.org/10.1099/00207713-41-1-158 CrossRefGoogle Scholar
  55. Green P, Bousfield I (1983) Emendation of Methylobacterium Patt, Cole, and Hanson 1976; Methylobacterium rhodinum (Heumann 1962) comb. nov. corrig.; Methylobacterium radiotolerans (Ito and Iizuka 1971) comb. nov. corrig.; and Methylobacterium mesophilicum (Austin and Goodfellow 1979) comb. nov. Int J Syst Evol Microbiol 33:875–877.  https://doi.org/10.1099/00207713-33-4-875 CrossRefGoogle Scholar
  56. Hayat Q, Hayat S, Irfan M, Ahmad A (2010) Effect of exogenous salicylic acid under changing environment: a review. Environ Exp Bot 68:14–25.  https://doi.org/10.1016/j.envexpbot.2009.08.005 CrossRefGoogle Scholar
  57. Holland MA, Davis R, Moffitt S, O'Laughlin K, Peach D, Sussan S, Wimbrow L, Tayman B (2000) Using “leaf prints” to investigate a common bacterium. Am Biol Teach 62:128–131 Available at: https://www.jstor.org/stable/4450852 Accessed 17 January 2019
  58. Hu X, Chen J, Guo J (2006) Two phosphate- and potassium-solubilizing bacteria isolated from Tianmu Mountain, Zhejiang, China. World J Microbiol Biotechnol 22:983–990.  https://doi.org/10.1007/s11274-006-9144-2 CrossRefGoogle Scholar
  59. Idris R, Kuffner M, Bodrossy L, Puschenreiter M, Monchy S, Wenzel WW, Sessitsch A (2006) Characterization of Ni-tolerant methylobacteria associated with the hyperaccumulating plant Thlaspi goesingense and description of Methylobacterium goesingense sp. nov. Syst Appl Microbiol 29:634–644.  https://doi.org/10.1016/j.syapm.2006.01.011 CrossRefPubMedGoogle Scholar
  60. Irvine IC, Brigham CA, Suding KN, Martiny JB (2012) The abundance of pink-pigmented facultative methylotrophs in the root zone of plant species in invaded coastal sage scrub habitat. PLoS One 7:e31026.  https://doi.org/10.1371/journal.pone.0031026 CrossRefPubMedPubMedCentralGoogle Scholar
  61. Ivanova E, Doronina N, Trotsenko YA (2001) Aerobic methylobacteria are capable of synthesizing auxins. Microbiology 70:392–397.  https://doi.org/10.1023/A:1010469708107 CrossRefGoogle Scholar
  62. Jaatinen K, Tuittila E-S, Laine J, Yrjälä K, Fritze H (2005) Methane-oxidizing bacteria in a Finnish raised mire complex: effects of site fertility and drainage. Microb Ecol 50:429–439.  https://doi.org/10.1007/s00248-005-9219-x CrossRefPubMedGoogle Scholar
  63. Jacobson CB, Pasternak J, Glick BR (1994) Partial purification and characterization of 1-aminocyclopropane-1-carboxylate deaminase from the plant growth promoting rhizobacterium Pseudomonas putida GR12-2. Can J Microbiol 40:1019–1025.  https://doi.org/10.1139/m94-162 CrossRefGoogle Scholar
  64. Jayashree S, Lalitha R, Vadivukkarasi P, Kato Y, Seshadri S (2011a) Cellulase production by pink pigmented facultative methylotrophic strains (PPFMs). Appl Biochem Biotechnol 164:666–680.  https://doi.org/10.1007/s12010-011-9166-6 CrossRefPubMedGoogle Scholar
  65. Jayashree S, Vadivukkarasi P, Anand K, Kato Y, Seshadri S (2011b) Evaluation of pink-pigmented facultative methylotrophic bacteria for phosphate solubilization. Arch Microbiol 193:543–552.  https://doi.org/10.1007/s00203-011-0691-z CrossRefPubMedGoogle Scholar
  66. Joe MM, Saravanan V, Islam MR, Sa T (2014) Development of alginate-based aggregate inoculants of Methylobacterium sp. and Azospirillum brasilense tested under in vitro conditions to promote plant growth. J Appl Microbiol 116:408–423.  https://doi.org/10.1111/jam.12384 CrossRefPubMedGoogle Scholar
  67. Jourand P, Giraud E, Béna G, Sy A, Willems A, Gillis M, Dreyfus B, de Lajudie P (2004) Methylobacterium nodulans sp. nov., for a group of aerobic, facultatively methylotrophic, legume root-nodule-forming and nitrogen-fixing bacteria. Int J Syst Evol Microbiol 54:2269–2273.  https://doi.org/10.1099/ijs.0.02902-0 CrossRefPubMedGoogle Scholar
  68. Kalyuzhnaya MG, Bowerman S, Lara JC, Lidstrom ME, Chistoserdova L (2006) Methylotenera mobilis gen. nov., sp. nov., an obligately methylamine-utilizing bacterium within the family Methylophilaceae. Int J Syst Evol Microbiol 56:2819–2823.  https://doi.org/10.1099/ijs.0.64191-0 CrossRefPubMedGoogle Scholar
  69. Kalyuzhnaya MG, Beck DAC, Vorobev A, Smalley N, Kunkel DD, Lidstrom ME, Chistoserdova L (2012) Novel methylotrophic isolates from lake sediment, description of Methylotenera versatilis sp. nov. and emended description of the genus Methylotenera. Int J Syst Evol Microbiol 62:106–111.  https://doi.org/10.1099/ijs.0.029165-0 CrossRefPubMedGoogle Scholar
  70. Kang Y-S, Kim J, Shin H-D, Nam Y-D, Bae J-W, Jeon CO, Park W (2007) Methylobacterium platani sp. nov., isolated from a leaf of the tree Platanus orientalis. Int J Syst Evol Microbiol 57:2849–2853.  https://doi.org/10.1099/ijs.0.65262-0 CrossRefPubMedGoogle Scholar
  71. Kaparullina EN, Doronina NV, Mustakhimov II, Agafonova NV, Trotsenko YA (2017a) Biodiversity of aerobic methylobacteria associated with the phyllosphere of the southern Moscow region. Microbiology 86:113–118.  https://doi.org/10.1134/s0026261717010076 CrossRefGoogle Scholar
  72. Kaparullina EN, Trotsenko YA, Doronina NV (2017b) Methylobacillus methanolivorans sp. nov., a novel non-pigmented obligately methylotrophic bacterium. Int J Syst Evol Microbiol 67:425–431.  https://doi.org/10.1099/ijsem.0.001646 CrossRefPubMedGoogle Scholar
  73. Kato Y, Asahara M, Goto K, Kasai H, Yokota A (2008) Methylobacterium persicinum sp. nov., Methylobacterium komagatae sp. nov., Methylobacterium brachiatum sp. nov., Methylobacterium tardum sp. nov. and Methylobacterium gregans sp. nov., isolated from freshwater. Int J Syst Evol Microbiol 58:1134–1141.  https://doi.org/10.1099/ijs.0.65583-0 CrossRefPubMedGoogle Scholar
  74. Kerry RG, Patra S, Gouda S, Patra JK, Das G (2018) Microbes and their role in drought tolerance of agricultural food crops. In: Microbial biotechnology. Springer, pp 253–273.  https://doi.org/10.1007/978-981-10-7140-9_12
  75. Kouno K, Ozaki A (1975) Distribution and identification of methanol-utilizing bacteria. Microbial growth on C. J Gen Appl Microbiol 19:11–21CrossRefGoogle Scholar
  76. Kumar M, Singh D, Prabha R, Sharma AK (2015a) Role of cyanobacteria in nutrient cycle and use efficiency in the soil. In: Nutrient use efficiency: from basics to advances. Springer, pp 163–171.  https://doi.org/10.1007/978-81-322-2169-2_10
  77. Kumar M, Srivastava AK, Pandey AK (2015b) Biocontrol activity of some potent Methylotrophs isolated from Bhitarkanika mangrove sediment. Int J Curr Res Biosci Plant Biol 2:101–106Google Scholar
  78. Kumar M, Tomar RS, Lade H, Paul D (2016) Methylotrophic bacteria in sustainable agriculture. World J Microbiol Biotechnol 32:120.  https://doi.org/10.1007/s11274-016-2074-8 CrossRefPubMedGoogle Scholar
  79. Kumar M, Saxena R, Tomar RS (2017) Endophytic microorganisms: promising candidate as biofertilizer. In: Microorganisms for green revolution. Springer, pp 77–85.  https://doi.org/10.1007/978-981-10-6241-4_4
  80. Kwak M-J, Jeong H, Madhaiyan M, Lee Y, Sa T-M, Oh TK, Kim JF (2014) Genome information of Methylobacterium oryzae, a plant-probiotic methylotroph in the phyllosphere. PLoS One 9:e106704.  https://doi.org/10.1371/journal.pone.0106704 CrossRefPubMedPubMedCentralGoogle Scholar
  81. Lacava PT, Silva-Stenico ME, Araújo WL, Simionato AVC, Carrilho E, Tsai SM, Azevedo JL (2008) Detection of siderophores in endophytic bacteria Methylobacterium spp. associated with Xylella fastidiosa subsp. pauca. Pesq Agrop Brasileira 43:521–528CrossRefGoogle Scholar
  82. Lapidus A, Clum A, LaButti K, Kalyuzhnaya MG, Lim S, Beck DAC, Glavina del Rio T, Nolan N, Mavromatis K, Huntemann M et al (2011) Genomes of three Methylotrophs from a single niche reveal the genetic and metabolic divergence of the Methylophilaceae. J Bacteriol 193:3757–3764.  https://doi.org/10.1128/JB.00404-11 CrossRefPubMedPubMedCentralGoogle Scholar
  83. Lata R, Chowdhury S, Gond SK, White JF Jr (2018) Induction of abiotic stress tolerance in plants by endophytic microbes. Lett Appl Microbiol 66:268–276.  https://doi.org/10.1111/lam.12855 CrossRefPubMedGoogle Scholar
  84. Lee Y, Jeon CO (2018) Methylobacterium frigidaeris sp. nov., isolated from an air conditioning system. Int J Syst Evol Microbiol 68:299–304.  https://doi.org/10.1099/ijsem.0.002500 CrossRefPubMedGoogle Scholar
  85. Lee HS, Madhaiyan M, Kim CW, Choi SJ, Chung KY, Sa TM (2006) Physiological enhancement of early growth of rice seedlings (Oryza sativa L.) by production of phytohormone of N2-fixing methylotrophic isolates. Biol Fert Soils 42:402–408CrossRefGoogle Scholar
  86. Ma W, Guinel FC, Glick BR (2003) Rhizobium leguminosarum biovar viciae 1-aminocyclopropane-1-carboxylate deaminase promotes nodulation of pea plants. Appl Environ Microbiol 69:4396–4402.  https://doi.org/10.1128/AEM.69.8.4396-4402.2003 CrossRefPubMedPubMedCentralGoogle Scholar
  87. Ma W, Charles TC, Glick BR (2004) Expression of an exogenous 1-aminocyclopropane-1-carboxylate deaminase gene in Sinorhizobium meliloti increases its ability to nodulate alfalfa. Appl Environ Microbiol 70:5891–5897.  https://doi.org/10.1128/AEM.70.10.5891-5897.2004 CrossRefPubMedPubMedCentralGoogle Scholar
  88. Madhaiyan M, Poonguzhali S (2014) Methylobacterium pseudosasicola sp. nov. and Methylobacterium phyllostachyos sp. nov., isolated from bamboo leaf surfaces. Int J Syst Evol Microbiol 64:2376–2384.  https://doi.org/10.1099/ijs.0.057232-0 CrossRefPubMedGoogle Scholar
  89. Madhaiyan M, Poonguzhali S, Senthilkumar M, Seshadri S, Chung H, Jinchul Y, Sundaram S, Tongmin S (2004) Growth promotion and induction of systemic resistance in rice cultivar co-47 (Oryza sativa L.) by Methylobacterium spp. Bot Bull Acad Sin 45:315–324Google Scholar
  90. Madhaiyan M, Poonguzhali S, Ryu J, Sa T (2006a) Regulation of ethylene levels in canola (Brassica campestris) by 1-aminocyclopropane-1-carboxylate deaminase-containing Methylobacterium fujisawaense. Planta 224:268–278.  https://doi.org/10.1007/s00425-005-0211-y CrossRefPubMedGoogle Scholar
  91. Madhaiyan M, Suresh Reddy BV, Anandham R, Senthilkumar M, Poonguzhali S, Sundaram SP, Sa T (2006b) Plant growth–promoting Methylobacterium induces defense responses in groundnut (Arachis hypogaea L.) compared with rot pathogens. Curr Microbiol 53:270–276.  https://doi.org/10.1007/s00284-005-0452-9 CrossRefPubMedGoogle Scholar
  92. Madhaiyan M, Kim B-Y, Poonguzhali S, Kwon S-W, Song M-H, Ryu J-H, Go S-J, Koo B-S, Sa T-M (2007a) Methylobacterium oryzae sp. nov., an aerobic, pink-pigmented, facultatively methylotrophic, 1-aminocyclopropane-1-carboxylate deaminase-producing bacterium isolated from rice. Int J Syst Evol Microbiol 57:326–331.  https://doi.org/10.1099/ijs.0.64603-0 CrossRefPubMedGoogle Scholar
  93. Madhaiyan M, Poonguzhali S, Sa T (2007b) Characterization of 1-aminocyclopropane-1-carboxylate (ACC) deaminase containing Methylobacterium oryzae and interactions with auxins and ACC regulation of ethylene in canola (Brassica campestris). Planta 226:867–876.  https://doi.org/10.1007/s00425-007-0532-0 CrossRefPubMedGoogle Scholar
  94. Madhaiyan M, Poonguzhali S, Kwon S-W, Sa T-M (2009) Methylobacterium phyllosphaerae sp. nov., a pink-pigmented, facultative methylotroph from the phyllosphere of rice. Int J Syst Evol Microbiol 59:22–27.  https://doi.org/10.1099/ijs.0.001693-0 CrossRefPubMedGoogle Scholar
  95. Madhaiyan M, Chauhan PS, Yim WJ, Boruah HPD, Sa TM (2011) Diversity and beneficial interactions among Methylobacterium and plants. In: Bacteria in agrobiology: plant growth responses. Springer, pp 259–284.  https://doi.org/10.1007/978-3-642-20332-9_12
  96. Madhaiyan M, Poonguzhali S, Senthilkumar M, Lee J-S, Lee K-C (2012) Methylobacterium gossipiicola sp. nov., a pink-pigmented, facultatively methylotrophic bacterium isolated from the cotton phyllosphere. Int J Syst Evol Microbiol 62:162–167.  https://doi.org/10.1099/ijs.0.030148-0 CrossRefPubMedGoogle Scholar
  97. Madhaiyan M, Chan KL, Ji L (2014) Draft genome sequence of Methylobacterium sp. strain L2-4, a leaf-associated endophytic N-fixing bacterium isolated from Jatropha curcas L. Genome Announc 2:e01306–e01314.  https://doi.org/10.1128/genomeA.01306-14 CrossRefPubMedPubMedCentralGoogle Scholar
  98. Madhaiyan M, Alex THH, Ngoh ST, Prithiviraj B, Ji L (2015) Leaf-residing Methylobacterium species fix nitrogen and promote biomass and seed production in Jatropha curcas. Biotechnol Biofuels 8:222.  https://doi.org/10.1186/s13068-015-0404-y CrossRefPubMedPubMedCentralGoogle Scholar
  99. Marinho Almeida D, Dini-Andreote F, Camargo Neves AA, Jucá Ramos RT, Andreote FD, Carneiro AR, Oliveira de Souza Lima A, Caracciolo Gomes de Sá PH, Ribeiro Barbosa MS, Araújo WL, Silva A (2013) Draft genome sequence of Methylobacterium mesophilicum strain SR1.6/6, isolated from Citrus sinensis. Genome Announc 1:e00356–e00313.  https://doi.org/10.1128/genomeA.00356-13 CrossRefPubMedPubMedCentralGoogle Scholar
  100. Marx CJ, Bringel F, Chistoserdova L, Moulin L, Haque MFU, Fleischman DE, Gruffaz C, Jourand P, Knief C, Lee M-C (2012) Complete genome sequences of six strains of the genus Methylobacterium. J Bacteriol 194:4746.  https://doi.org/10.1128/JB.01009-12 CrossRefPubMedPubMedCentralGoogle Scholar
  101. McDonald I, Kenna E, Murrell J (1995) Detection of methanotrophic bacteria in environmental samples with the PCR. Appl Environ Microbiol 61:116–121 Available at: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC167268/ Accessed 17 January 2019
  102. McDonald IR, Doronina NV, Trotsenko YA, McAnulla C, Murrell JC (2001) Hyphomicrobium chloromethanicum sp. nov. and Methylobacterium chloromethanicum sp. nov., chloromethane-utilizing bacteria isolated from a polluted environment. Int J Syst Evol Microbiol 51:119–122 Available at: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC167268/ Accessed 17 January 2019
  103. McTaggart TL, Benuska G, Shapiro N, Woyke T, Chistoserdova L (2015) Draft genome sequences of five new strains of Methylophilaceae isolated from Lake Washington sediment. Genome Announc 3:e01511–e01514.  https://doi.org/10.1128/genomeA.01511-14 CrossRefPubMedPubMedCentralGoogle Scholar
  104. Meena KK, Kumar M, Kalyuzhnaya MG, Yandigeri MS, Singh DP, Saxena AK, Arora DK (2012) Epiphytic pink-pigmented methylotrophic bacteria enhance germination and seedling growth of wheat (Triticum aestivum) by producing phytohormone. Antonie Van Leeuwenhoek 101:777–786.  https://doi.org/10.1007/s10482-011-9692-9 CrossRefPubMedGoogle Scholar
  105. Meena KK, Sorty AM, Bitla UM, Choudhary K, Gupta P, Pareek A, Singh DP, Prabha R, Sahu PK, Gupta VK (2017) Abiotic stress responses and microbe-mediated mitigation in plants: the omics strategies. Front Plant Sci 8:172.  https://doi.org/10.3389/fpls.2017.00172 CrossRefPubMedPubMedCentralGoogle Scholar
  106. Minami T, Ohtsubo Y, Anda M, Nagata Y, Tsuda M, Mitsui H, Sugawara M, Minamisawa K (2016) Complete genome sequence of Methylobacterium sp. strain AMS5, an isolate from a soybean stem. Genome Announc 4:e00144–e00116.  https://doi.org/10.1128/genomeA.00144-16 CrossRefPubMedPubMedCentralGoogle Scholar
  107. Ngumbi E, Kloepper J (2016) Bacterial-mediated drought tolerance: current and future prospects. Appl Soil Ecol 105:109–125.  https://doi.org/10.1016/j.apsoil.2016.04.009 CrossRefGoogle Scholar
  108. Nguyen D, Rieu I, Mariani C, van Dam NM (2016) How plants handle multiple stresses: hormonal interactions underlying responses to abiotic stress and insect herbivory. Plant Mol Biol 91:727–740.  https://doi.org/10.1007/s11103-016-0481-8 CrossRefPubMedPubMedCentralGoogle Scholar
  109. Omer Z, Tombolini R, Broberg A, Gerhardson B (2004) Indole-3-acetic acid production by pink-pigmented facultative methylotrophic bacteria. Plant Growth Reg 43:93–96.  https://doi.org/10.1023/B:GROW.0000038360.09079.ad CrossRefGoogle Scholar
  110. Patt T, Cole G, Hanson R (1976) Methylobacterium, a new genus of facultatively methylotrophic bacteria. Int J Syst Evol Microbiol 26:226–229.  https://doi.org/10.1099/00207713-26-2-226 CrossRefGoogle Scholar
  111. Pattnaik S, Rajkumari J, Paramanandham P, Busi S (2017) Indole acetic acid production and growth-promoting activity of Methylobacterium extorquens MP1 and Methylobacterium zatmanii MS4 in tomato. Int J Veg Sci 23:321–330.  https://doi.org/10.1080/19315260.2017.1283381 CrossRefGoogle Scholar
  112. Pikovskaya R (1948) Mobilization of phosphorus in soil in connection with vital activity of some microbial species. Mikrobiologiya 17:362–370Google Scholar
  113. Poroshina M, Doronina N, Kaparullina E, Kovalevskaya N, Trotsenko YA (2013) Halophilic and halotolerant aerobic methylobacteria from the technogenic Solikamsk biotopes. Microbiology 82:490–498.  https://doi.org/10.1134/S0026261713040097 CrossRefGoogle Scholar
  114. Prombunchachai T, Nakaew N, Chidburee A, Sarin S (2017) Effect of Methylobacterium radiotolerans ED5-9 with capability of producing Indole-3-acetic acid (IAA) and 1-Aminocyclopropane-1-carboxylic acid deaminase on the growth and development of Murdannia loriformis (Hassk.) Rolla Rao & Kammathy under In Vitro condition. Naresuan Uni. J Sci Technol 25:21–31Google Scholar
  115. Putkinen A, Larmola T, Tuomivirta T, Siljanen HM, Bodrossy L, Tuittila E-S, Fritze H (2012) Water dispersal of methanotrophic bacteria maintains functional methane oxidation in Sphagnum mosses. Front Microbiol 3:15.  https://doi.org/10.3389/fmicb.2012.00015 CrossRefPubMedPubMedCentralGoogle Scholar
  116. Raja P, Uma S, Sundaram S (2006) Non-nodulating pink-pigmented facultative Methylobacterium sp. with a functional nifH gene. World J Microbiol Biotechnol 22:1381–1384.  https://doi.org/10.1007/s11274-006-9199-0 CrossRefGoogle Scholar
  117. Raja P, Balachandar D, Sundaram SP (2008) Genetic diversity and phylogeny of pink-pigmented facultative methylotrophic bacteria isolated from the phyllosphere of tropical crop plants. Biol Fertil Soils 45:45–53.  https://doi.org/10.1007/s00374-008-0306-2 CrossRefGoogle Scholar
  118. Rana KL, Kour D, Sheikh I, Yadav N, Yadav AN, Kumar V, Singh BP, Dhaliwal HS, Saxena AK (2018) Biodiversity of endophytic fungi from diverse niches and their biotechnological applications. In: Singh BP (ed) Advances in endophytic fungal research. Springer, Switzerland.  https://doi.org/10.1007/978-3-030-03589-1
  119. Rekadwad BN (2014) Growth promotion of crop plants by Methylobacterium organophilum: efficient bio-inoculant and bio-fertilizer isolated from mud. Res Biotechnol 5:1–6Google Scholar
  120. Röling W, Ortega-Lucach S, Larter S, Head I (2006) Acidophilic microbial communities associated with a natural, biodegraded hydrocarbon seepage. J Appl Microbiol 101:290–299.  https://doi.org/10.1111/j.1365-2672.2006.02926.x CrossRefPubMedGoogle Scholar
  121. Romanovskaia V, Shilin S, Chernaia N, Tashirev A, Malashenko I, Rokitko P (2005) Search for psychrophilic methylotrophic bacteria in biotopes of the Antarctica. Mikrobiol Z 67:3–8 Available at: https://www.ncbi.nlm.nih.gov/pubmed/16018200 Accessed 17 January 2019
  122. Sahin N, Kato Y, Yilmaz F (2008) Taxonomy of oxalotrophic Methylobacterium strains. Naturwissenschaften 95:931–938.  https://doi.org/10.1007/s00114-008-0405-9 CrossRefPubMedGoogle Scholar
  123. Saikia J, Sarma RK, Dhandia R, Yadav A, Bharali R, Gupta VK, Saikia R (2018) Alleviation of drought stress in pulse crops with ACC deaminase producing rhizobacteria isolated from acidic soil of Northeast India. Sci Rep 8:3560.  https://doi.org/10.1038/s41598-018-21921-w CrossRefPubMedPubMedCentralGoogle Scholar
  124. Sapp A, Huguet-Tapia JC, Sánchez-Lamas M, Antelo GT, Primo ED, Rinaldi J, Klinke S, Goldbaum FA, Bonomi HR, Christner BC (2018) Draft genome sequence of Methylobacterium sp. strain V23, isolated from accretion ice of the Antarctic subglacial Lake Vostok. Genome Announc 6:e00145–e00118.  https://doi.org/10.1128/genomeA.00145-18 CrossRefPubMedPubMedCentralGoogle Scholar
  125. Schauer S, Kämpfer P, Wellner S, Spröer C, Kutschera U (2011) Methylobacterium marchantiae sp. nov., a pink-pigmented, facultatively methylotrophic bacterium isolated from the thallus of a liverwort. Int J Syst Evol Microbiol 61:870–876.  https://doi.org/10.1099/ijs.0.021915-0 CrossRefPubMedGoogle Scholar
  126. Schnell S, King G (1996) Responses of methanotrophic activity in soils and cultures to water stress. Appl Environ Microbiol 62:3203–3209 Available at: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1388933/ Accessed 17 January 2019
  127. Schouten S, Bowman JP, Rijpstra WIC, Sinninghe Damsté JS (2000) Sterols in a psychrophilic methanotroph, Methylosphaera hansonii. FEMS Microbiol Lett 186:193–195.  https://doi.org/10.1111/j.1574-6968.2000.tb09103.x CrossRefPubMedGoogle Scholar
  128. Schwyn B, Neilands J (1987) Universal chemical assay for the detection and determination of siderophores. Anal Biochem 160:47–56.  https://doi.org/10.1016/0003-2697(87)90612-9 CrossRefGoogle Scholar
  129. Shmareva M, Doronina N, Tarlachkov S, Vasilenko O, Trotsenko YA (2018) Methylophaga muralis Bur 1, a haloalkaliphilic methylotroph isolated from the Khilganta soda lake (southern Transbaikalia, Buryat Republic). Microbiology 87:33–46.  https://doi.org/10.1134/S0026261718010162 CrossRefGoogle Scholar
  130. Sijam K, Dikin A (2005) Biochemical and physiological characterization of Burkholderia cepacia as biological control agent. Int J Agr Biol 7:385–388Google Scholar
  131. Sivakumar R, Nandhitha G, Chandrasekaran P, Boominathan P, Senthilkumar M (2017) Impact of pink pigmented facultative Methylotroph and PGRs on water status, photosynthesis, proline and NR activity in tomato under drought. Int J Curr Microbiol App Sci 6:1640–1651.  https://doi.org/10.20546/ijcmas.2017.606.192 CrossRefGoogle Scholar
  132. Sorokin DY, Trotsenko YA, Doronina NV, Tourova TP, Galinski EA, Kolganova TV, Muyzer G (2007) Methylohalomonas lacus gen. Nov., sp. nov. and Methylonatrum kenyense gen. nov., sp. nov., methylotrophic gammaproteobacteria from hypersaline lakes. Int J Syst Evol Microbiol 57:2762–2769.  https://doi.org/10.1099/ijs.0.64955-0 CrossRefPubMedGoogle Scholar
  133. Stella M, Halimi M (2015) Gluconic acid production by bacteria to liberate phosphorus from insoluble phosphate complexes. J Trop Agric Fd Sc 43:41–53Google Scholar
  134. Subhaswaraj P, Jobina R, Parasuraman P, Siddhardha B (2017) Plant growth promoting activity of pink pigmented facultative methylotroph–Methylobacterium extorquens MM2 on Lycopersicon esculentum L. J Appl Biol Biotechnol 5:42–46.  https://doi.org/10.7324/JABB.2017.50107 CrossRefGoogle Scholar
  135. Suman A, Yadav AN, Verma P (2016) Endophytic microbes in crops: diversity and beneficial impact for sustainable agriculture. In: Microbial inoculants in sustainable agricultural productivity, vol.1, Research Perspectives. (eds Singh DP, Abhilash PC, Prabha R), pp.117–143.  https://doi.org/10.1007/s13213-014-1027-4
  136. Sy A, Giraud E, Jourand P, Garcia N, Willems A, De Lajudie P, Prin Y, Neyra M, Gillis M, Boivin-Masson C (2001) Methylotrophic Methylobacterium bacteria nodulate and fix nitrogen in symbiosis with legumes. J Bacteriol 183:214–220.  https://doi.org/10.1128/JB.183.1.214-220.2001 CrossRefPubMedPubMedCentralGoogle Scholar
  137. Tani A, Sahin N (2013) Methylobacterium haplocladii sp. nov. and Methylobacterium brachythecii sp. nov., isolated from bryophytes. Int J Syst Evol Microbiol 63:3287–3292.  https://doi.org/10.1099/ijs.0.048215-0 CrossRefPubMedGoogle Scholar
  138. Tani A, Sahin N, Kimbara K (2012a) Methylobacterium gnaphalii sp. nov., isolated from leaves of Gnaphalium spicatum. Int J Syst Evol Microbiol 62:2602–2607.  https://doi.org/10.1099/ijs.0.037713-0 CrossRefPubMedGoogle Scholar
  139. Tani A, Sahin N, Kimbara K (2012b) Methylobacterium oxalidis sp. nov., isolated from leaves of Oxalis corniculata. Int J Syst Evol Microbiol 62:1647–1652.  https://doi.org/10.1099/ijs.0.033019-0 CrossRefPubMedGoogle Scholar
  140. Tani A, Ogura Y, Hayashi T, Kimbara K (2015) Complete genome sequence of Methylobacterium aquaticum strain 22A, isolated from Racomitrium japonicum Moss. Genome Announc 3:e00266–e00215.  https://doi.org/10.1128/genomeA.00266-15 CrossRefPubMedPubMedCentralGoogle Scholar
  141. Trotsenko YA, Ivanova E, Doronina N (2001) Aerobic methylotrophic bacteria as phytosymbionts. Microbiology 70:623–632.  https://doi.org/10.1023/A:1013167612105 CrossRefGoogle Scholar
  142. Trotsenko YA, Doronina N, Li TD, Reshetnikov A (2007) Moderately haloalkaliphilic aerobic methylobacteria. Microbiology 76:253–265.  https://doi.org/10.1134/S0026261707030010 CrossRefGoogle Scholar
  143. Trotsenko YA, Medvedkova K, Khmelenina V, Eshinimayev BT (2009) Thermophilic and thermotolerant aerobic methanotrophs. Microbiology 78:387–401.  https://doi.org/10.1134/S0026261709040018 CrossRefGoogle Scholar
  144. Turner TR, James EK, Poole PS (2013) The plant microbiome. Genome Biol 14:209.  https://doi.org/10.1186/gb-2013-14-6-209 CrossRefPubMedPubMedCentralGoogle Scholar
  145. Urakami T, Araki H, Suzuki K-I, Komagata K (1993) Further studies of the genus Methylobacterium and description of Methylobacterium aminovorans sp. nov. Int J Syst Evol Microbiol 43:504–513Google Scholar
  146. Van Aken B, Peres CM, Doty SL, Yoon JM, Schnoor JL (2004) Methylobacterium populi sp. nov., a novel aerobic, pink-pigmented, facultatively methylotrophic, methane-utilizing bacterium isolated from poplar trees (Populus deltoides × nigra DN34). Int J Syst Evol Microbiol 54:1191–1196.  https://doi.org/10.1099/ijs.0.02796-0 CrossRefPubMedGoogle Scholar
  147. Van Loon L, Bakker P, Pieterse C (1998) Systemic resistance induced by rhizosphere bacteria. Annu Rev Phytopathol 36:453–483.  https://doi.org/10.1146/annurev.phyto.36.1.453 CrossRefPubMedGoogle Scholar
  148. Van Winden JF, Kip N, Reichart G-J, Jetten MS, den Camp HJO, Damsté JSS (2010) Lipids of symbiotic methane-oxidizing bacteria in peat moss studied using stable carbon isotopic labelling. Organic Geochem 41:1040–1044.  https://doi.org/10.1016/j.orggeochem.2010.04.015 CrossRefGoogle Scholar
  149. Verma P, Yadav AN, Kazy SK, Saxena AK, Suman A (2013) Elucidating the diversity and plant growth promoting attributes of wheat (Triticum aestivum) associated acidotolerant bacteria from southern hills zone of India. Natl J Life Sci 10:219–227Google Scholar
  150. Verma P, Yadav AN, Kazy SK, Saxena AK, Suman A (2014) Evaluating the diversity and phylogeny of plant growth promoting bacteria associated with wheat (Triticum aestivum) growing in central zone of India. Int J Curr Microbiol Appl Sci 3:432–447Google Scholar
  151. Verma P, Yadav AN, Khannam KS, Panjiar N, Kumar S, Saxena AK, Suman A (2015) Assessment of genetic diversity and plant growth promoting attributes of psychrotolerant bacteria allied with wheat (Triticum aestivum) from the northern hills zone of India. Ann Microbiol 65:1885–1899.  https://doi.org/10.1007/s13213-014-1027-4 CrossRefGoogle Scholar
  152. Verma P, Yadav AN, Khannam KS, Kumar S, Saxena AK, Suman A (2016a) Molecular diversity and multifarious plant growth promoting attributes of bacilli associated with wheat (Triticum aestivum L.) rhizosphere from six diverse agro-ecological zones of India. J Basic Microbiol 56:44–58.  https://doi.org/10.1002/jobm.201500459 CrossRefPubMedGoogle Scholar
  153. Verma P, Yadav AN, Khannam KS, Mishra S, Kumar S, Saxena AK, Suman A (2016b) Appraisal of diversity and functional attributes of thermotolerant wheat associated bacteria from the peninsular zone of India. Saudi J Biol Sci.  https://doi.org/10.1016/j.sjbs.2016.01.042
  154. Verma P, Yadav AN, Khannam KS, Saxena AK, Suman A (2017a) Potassium-solubilizing microbes: diversity, distribution, and role in plant growth promotion. In: Panpatte DG, Jhala YK, Vyas RV, Shelat HN (eds) Microorganisms for Green revolution-volume 1: microbes for sustainable crop production. Springer, Singapore, pp 125–149.  https://doi.org/10.1007/978-981-10-6241-4_7 CrossRefGoogle Scholar
  155. Verma P, Yadav AN, Kumar V, Singh DP, Saxena AK (2017b) Beneficial plant-microbes interactions: biodiversity of microbes from diverse extreme environments and its impact for crops improvement. In: Singh DP, Singh HB, Prabha R (eds) Plant-microbe interactions in agro-ecological perspectives. Springer Nature, Singapore, pp 543–580.  https://doi.org/10.1007/978-981-10-6593-4_22 CrossRefGoogle Scholar
  156. Veyisoglu A, Camas M, Tatar D, Guven K, Sazak A, Sahin N (2013) Methylobacterium tarhaniae sp. nov., isolated from arid soil. Int J Syst Evol Microbiol 63:2823–2828.  https://doi.org/10.1099/ijs.0.049551-0 CrossRefPubMedGoogle Scholar
  157. Von Fischer JC, Butters G, Duchateau PC, Thelwell RJ, Siller R (2009) In situ measures of methanotroph activity in upland soils: a reaction-diffusion model and field observation of water stress. J Geophys Res Biogeosci 114:1–12.  https://doi.org/10.1029/2008JG000731 CrossRefGoogle Scholar
  158. Vorobev AV, Baani M, Doronina NV, Brady AL, Liesack W, Dunfield PF, Dedysh SN (2011) Methyloferula stellata gen. nov., sp. nov., an acidophilic, obligately methanotrophic bacterium that possesses only a soluble methane monooxygenase. Int J Syst Evol Microbiol 61:2456–2463.  https://doi.org/10.1099/ijs.0.028118-0 CrossRefPubMedGoogle Scholar
  159. Vorob’ev AV, de Boer W, Folman LB, Bodelier PLE, Doronina NV, Suzina NE, Trotsenko YA, Dedysh SN (2009) Methylovirgula ligni gen. nov., sp. nov., an obligately acidophilic, facultatively methylotrophic bacterium with a highly divergent mxaF gene. Int J Syst Evol Microbiol 59:2538–2545.  https://doi.org/10.1099/ijs.0.010074-0 CrossRefPubMedGoogle Scholar
  160. Wang X, Sahr F, Xue T, Sun B (2007) Methylobacterium salsuginis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 57:1699–1703.  https://doi.org/10.1099/ijs.0.64877-0 CrossRefPubMedGoogle Scholar
  161. Wellner S, Lodders N, Kämpfer P (2012) Methylobacterium cerastii sp. nov., isolated from the leaf surface of Cerastium holosteoides. Int J Syst Evol Microbiol 62:917–924.  https://doi.org/10.1099/ijs.0.030767-0 CrossRefPubMedGoogle Scholar
  162. Wellner S, Lodders N, Glaeser SP, Kämpfer P (2013) Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces. Int J Syst Evol Microbiol 63:2690–2699.  https://doi.org/10.1099/ijs.0.047787-0 CrossRefPubMedGoogle Scholar
  163. Weon H-Y, Kim B-Y, Joa J-H, Son J-A, Song M-H, Kwon S-W, Go S-J, Yoon S-H (2008) Methylobacterium iners sp. nov. and Methylobacterium aerolatum sp. nov., isolated from air samples in Korea. Int J Syst Evol Microbiol 58:93–96.  https://doi.org/10.1099/ijs.0.65047-0 CrossRefPubMedGoogle Scholar
  164. Wood AP, Kelly DP, McDonald IR, Jordan SL, Morgan TD, Khan S, Murrell JC, Borodina E (1998) A novel pink-pigmented facultative methylotroph, Methylobacterium thiocyanatum sp. nov., capable of growth on thiocyanate or cyanate as sole nitrogen sources. Arch Microbiol 169:148–158.  https://doi.org/10.1007/s002030050554 CrossRefPubMedGoogle Scholar
  165. Yadav AN (2009) Studies of Methylotrophic Community from the Phyllosphere and Rhizosphere of Tropical Crop Plants. M.Sc. Thesis, Bundelkhand University, pp. 66,  https://doi.org/10.13140/2.1.5099.0888
  166. Yadav AN (2015) Bacterial diversity of cold deserts and mining of genes for low temperature tolerance. Ph.D. Thesis, IARI, New Delhi/BIT, Ranchi pp. 234,  https://doi.org/10.13140/RG.2.1.2948.1283/2
  167. Yadav AN (2017) Agriculturally important microbiomes: biodiversity and multifarious PGP attributes for amelioration of diverse abiotic stresses in crops for sustainable agriculture. Biomed J Sci Tech Res 1:1–4.  https://doi.org/10.26717/BJSTR.2017.01.000321 CrossRefGoogle Scholar
  168. Yadav AN, Saxena AK (2018) Biodiversity and biotechnological applications of halophilic microbes for sustainable agriculture. J Appl Biol Biotechnol 6:1–8.  https://doi.org/10.7324/JABB.2018.60109 CrossRefGoogle Scholar
  169. Yadav AN, Yadav N (2018a) Stress-adaptive microbes for plant growth promotion and alleviation of drought stress in plants. Acta Sci Agric 2:85–88Google Scholar
  170. Yadav N, Yadav AN (2018b) Biodiversity and biotechnological applications of novel plant growth promoting methylotrophs. J Appl Biotechnol Bioeng 5:342–344.  https://doi.org/10.15406/jabb.2018.05.00162 CrossRefGoogle Scholar
  171. Yadav AN, Sachan SG, Verma P, Saxena AK (2015a) Prospecting cold deserts of north western Himalayas for microbial diversity and plant growth promoting attributes. J Biosci Bioeng 119:683–693.  https://doi.org/10.1016/j.jbiosc.2014.11.006 CrossRefPubMedGoogle Scholar
  172. Yadav AN, Sharma D, Gulati S, Singh S, Kaushik R, Dey R, Pal KK, Saxena AK (2015b) Haloarchaea endowed with phosphorus solubilization attribute implicated in phosphorus cycle. Sci Rep 5:12293.  https://doi.org/10.1038/srep12293 CrossRefPubMedPubMedCentralGoogle Scholar
  173. Yadav AN, Kumar R, Kumar S, Kumar V, Sugitha T, Singh B, Chauhan VS, Dhaliwal HS, Saxena AK (2017a) Beneficial microbiomes: biodiversity and potential biotechnological applications for sustainable agriculture and human health. J Appl Biol Biotechnol 5:1–13.  https://doi.org/10.7324/JABB.2017.50607 CrossRefGoogle Scholar
  174. Yadav AN, Verma P, Kour D, Rana KL, Kumar V, Singh B, Chauahan VS, Sugitha T, Saxena AK, Dhaliwal HS (2017b) Plant microbiomes and its beneficial multifunctional plant growth promoting attributes. Int J Environ Sci Nat Resour 3:1–8.  https://doi.org/10.19080/IJESNR.2017.03.555601 CrossRefGoogle Scholar
  175. Yadav AN, Verma P, Kumar R, Kumar V, Kumar K (2017c) Current applications and future prospects of eco-friendly microbes. EU Voice 3:21–22Google Scholar
  176. Yadav AN, Verma P, Kumar V, Sachan SG, Saxena AK (2017d) Extreme cold environments: a suitable niche for selection of novel psychrotrophic microbes for biotechnological applications. Adv Biotechnol Microbiol 2:1–4.  https://doi.org/10.19080/AIBM.2017.02.555584 CrossRefGoogle Scholar
  177. Yadav AN, Kumar V, Prasad R, Saxena AK, Dhaliwal HS (2018a) Microbiome in crops: diversity, distribution and potential role in crops improvements. In: Prasad R, Gill SS, Tuteja N (eds) Crop improvement through microbial biotechnology. Elsevier, USA, pp 305–332.  https://doi.org/10.1016/B978-0-444-63987-5.00015-3 CrossRefGoogle Scholar
  178. Yadav AN, Verma P, Kumar S, Kumar V, Kumar M, Singh BP, Saxena AK, Dhaliwal HS (2018b) Actinobacteria from rhizosphere: molecular diversity, distributions and potential biotechnological applications. In: Singh B, Gupta V, Passari A (eds) New and Future Developments in Microbial Biotechnology and Bioengineering. USA, pp 13–41.  https://doi.org/10.1016/B978-0-444-63994-3.00002-3
  179. Yordy JR, Weaver TL (1977) Methylobacillus: a new genus of obligately methylotrophic bacteria. Int J Syst Evol Microbiol 27:247–255.  https://doi.org/10.1099/00207713-27-3-247 CrossRefGoogle Scholar
  180. Yrjälä K, Tuomivirta T, Juottonen H, Putkinen A, Lappi K, Tuittila ES, Penttilä T, Minkkinen K, Laine J, Peltoniemi K (2011) CH4 production and oxidation processes in a boreal fen ecosystem after long-term water table drawdown. Glob Chang Biol 17:1311–1320.  https://doi.org/10.1111/j.1365-2486.2010.02290.x CrossRefGoogle Scholar

Copyright information

© Slovak Academy of Sciences 2019

Authors and Affiliations

  1. 1.Amity Institute of BiotechnologyAmity UniversityGwaliorIndia
  2. 2.Department of Biotechnology, Akal College of AgricultureEternal UniversityBaru SahibIndia
  3. 3.Department of Biotechnology and Bioinformatics CentreBarkatullah UniversityBhopalIndia
  4. 4.Depatment of BiotechnologyInvertis UniversityBareillyIndia

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