94
Ramesh A, Sharma SK, Sharma MP, Yadav N, Joshi OP (2014) Inoculation of zinc solubilizing
Bacillus aryabhattaistrains for improved growth, mobilization and biofortification of zinc in
soybean and wheat cultivated in Vertisols of Central India. Appl Soil Ecol 73:87–96
Rana A, Joshi M, Prasanna R, Singh Y, Nain L (2012) Biofortification of wheat through inoculation of plant growth promoting rhizobacteria and cyanobacteria. Eur J Soil Biol 50:118–126
Randle-Boggis RJ, Helgason T, Sapp M, Ashton PD (2016) Evaluating techniques for metagenome annotation using simulated sequence data. FEMS Microbiol Ecol 92:95
Rastogi G, Sani RK (2011) Molecular techniques to assess microbial community structure,
function, and dynamics in the environment, pp 29–57. Springer-Nature, Switzerland
Ratzke C, Denk J, Gore J (2018) Ecological suicide in microbes. Nat Ecol Evol 2:867–872
Raynaud X, Nunan N (2014) Spatial ecology of bacteria at the microscale in soil. PLoS One
9:e87217
Rho M, Tang H, Ye Y (2010) FragGeneScan: predicting genes in short and error-prone reads.
Nucleic Acids Res 38:e191
Richter DC, Ott F, Auch AF, Schmid R, Huson DH (2008) MetaSim: a sequencing simulator for
genomics and metagenomics. PLoS One 3:e3373
Rillig MC, Lehmann A, Lehmann J, Camenzind T, Rauh C (2018) Soil biodiversity effects from
field to fork. Trends Plant Sci 23:17–24
Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ et al (2013) Insights into the phylogeny and coding potential of microbial dark matter. Nature 499:431–437
Rinke C et al (2014) Obtaining genomes from uncultivated environmental microorganisms using
FACS-based single-cell genomics. Nat Protoc 9:1038–1048
Roesch LF, Fulthorpe RR, Riva A, Casella G, Hadwin AK, Kent AD, Daroub SH, Camargo FA,
Farmerie WG, Triplett EW (2007) Pyrosequencing enumerates and contrasts soil microbial
diversity. ISME J 1:283–290
Romeh AA, Hendawi MY (2017) Biochemical interactions between Glycine max L. silicon dioxide (SiO2) and plant growth-promoting bacteria (PGPR) for improving phytoremediation
of soil contaminated with fenamiphos and its degradation products. Pestic Biochem Physiol
142:32–43
Rodriguez-R LM, Konstantinidis KT (2014) Bypassing cultivation to identify bacterial species.
Microbe 9(3):111–118
Rosen GL, Reichenberger ER, Rosenfeld AM (2011) NBC: the Naïve Bayes Classification tool
webserver for taxonomic classification of metagenomic reads. Bioinformatics 27:127–129
Rothschild LJ, Mancinelli RL (2001) Review article life in extreme environments. Nature
409:1092–1101
Rusch DB, Halpern AL, Sutton G et al (2007) The sorcerer II global ocean sampling expedition:
northwest Atlantic through eastern tropical pacific. PLoS Biol 5:e77
Salam JA, Hatha MA, Das N (2017) Microbial-enhanced lindane removal by sugarcane (Saccharum
officinarum) in doped soil-applications in phytoremediation and bioaugmentation. J Environ
Manag 193:394–399
Salzberg SL, Pertea M, Delcher AL, Gardner MJ, Tettelin H (1999) Interpolated Markov models
for eukaryotic gene finding. Genomics 59:24–31
Santoyo G, Moreno-Hagelsiebb G, Orozco-Mosquedac MC, Glick BR (2016) Plant growthpromoting bacterial endophytes. Microbiol Res 183:92–99
Sanzani SM, Nicosia MGLD, Faedda R, Cacciola SO, Schena L (2014) Use of quantitative PCR
detection methods to study biocontrol agents and phytopathogenic fungi and oomycetes in
environmental samples. J Phytopathol 162:1–13
Sarathambal C, Ilamurugu K, Balachandar D, Chinnadurai C, Gharde Y (2015) Characterization
and crop production efficiency of diazotrophic isolates from the rhizosphere of semi-arid tropical grasses of India. Appl Soil Ecol 87:1–10
Sasse J, Martinoia E, Northen T (2018) Feed your friends: do plant exudates shape the root
microbiome? Trends Plant Sci 23:25–41
References
Ramesh A, Sharma SK, Sharma MP, Yadav N, Joshi OP (2014) Inoculation of zinc solubilizing
Bacillus aryabhattaistrains for improved growth, mobilization and biofortification of zinc in
soybean and wheat cultivated in Vertisols of Central India. Appl Soil Ecol 73:87–96
Rana A, Joshi M, Prasanna R, Singh Y, Nain L (2012) Biofortification of wheat through inoculation of plant growth promoting rhizobacteria and cyanobacteria. Eur J Soil Biol 50:118–126
Randle-Boggis RJ, Helgason T, Sapp M, Ashton PD (2016) Evaluating techniques for metagenome annotation using simulated sequence data. FEMS Microbiol Ecol 92:95
Rastogi G, Sani RK (2011) Molecular techniques to assess microbial community structure,
function, and dynamics in the environment, pp 29–57. Springer-Nature, Switzerland
Ratzke C, Denk J, Gore J (2018) Ecological suicide in microbes. Nat Ecol Evol 2:867–872
Raynaud X, Nunan N (2014) Spatial ecology of bacteria at the microscale in soil. PLoS One
9:e87217
Rho M, Tang H, Ye Y (2010) FragGeneScan: predicting genes in short and error-prone reads.
Nucleic Acids Res 38:e191
Richter DC, Ott F, Auch AF, Schmid R, Huson DH (2008) MetaSim: a sequencing simulator for
genomics and metagenomics. PLoS One 3:e3373
Rillig MC, Lehmann A, Lehmann J, Camenzind T, Rauh C (2018) Soil biodiversity effects from
field to fork. Trends Plant Sci 23:17–24
Rinke C, Schwientek P, Sczyrba A, Ivanova NN, Anderson IJ et al (2013) Insights into the phylogeny and coding potential of microbial dark matter. Nature 499:431–437
Rinke C et al (2014) Obtaining genomes from uncultivated environmental microorganisms using
FACS-based single-cell genomics. Nat Protoc 9:1038–1048
Roesch LF, Fulthorpe RR, Riva A, Casella G, Hadwin AK, Kent AD, Daroub SH, Camargo FA,
Farmerie WG, Triplett EW (2007) Pyrosequencing enumerates and contrasts soil microbial
diversity. ISME J 1:283–290
Romeh AA, Hendawi MY (2017) Biochemical interactions between Glycine max L. silicon dioxide (SiO2) and plant growth-promoting bacteria (PGPR) for improving phytoremediation
of soil contaminated with fenamiphos and its degradation products. Pestic Biochem Physiol
142:32–43
Rodriguez-R LM, Konstantinidis KT (2014) Bypassing cultivation to identify bacterial species.
Microbe 9(3):111–118
Rosen GL, Reichenberger ER, Rosenfeld AM (2011) NBC: the Naïve Bayes Classification tool
webserver for taxonomic classification of metagenomic reads. Bioinformatics 27:127–129
Rothschild LJ, Mancinelli RL (2001) Review article life in extreme environments. Nature
409:1092–1101
Rusch DB, Halpern AL, Sutton G et al (2007) The sorcerer II global ocean sampling expedition:
northwest Atlantic through eastern tropical pacific. PLoS Biol 5:e77
Salam JA, Hatha MA, Das N (2017) Microbial-enhanced lindane removal by sugarcane (Saccharum
officinarum) in doped soil-applications in phytoremediation and bioaugmentation. J Environ
Manag 193:394–399
Salzberg SL, Pertea M, Delcher AL, Gardner MJ, Tettelin H (1999) Interpolated Markov models
for eukaryotic gene finding. Genomics 59:24–31
Santoyo G, Moreno-Hagelsiebb G, Orozco-Mosquedac MC, Glick BR (2016) Plant growthpromoting bacterial endophytes. Microbiol Res 183:92–99
Sanzani SM, Nicosia MGLD, Faedda R, Cacciola SO, Schena L (2014) Use of quantitative PCR
detection methods to study biocontrol agents and phytopathogenic fungi and oomycetes in
environmental samples. J Phytopathol 162:1–13
Sarathambal C, Ilamurugu K, Balachandar D, Chinnadurai C, Gharde Y (2015) Characterization
and crop production efficiency of diazotrophic isolates from the rhizosphere of semi-arid tropical grasses of India. Appl Soil Ecol 87:1–10
Sasse J, Martinoia E, Northen T (2018) Feed your friends: do plant exudates shape the root
microbiome? Trends Plant Sci 23:25–41
References