91
Molina LG, Cordenonsi da Fonseca G, Morais GLD, de Oliveira LFV, Carvalho JBD, Kulcheski
FR, Margis R (2012) Metatranscriptomic analysis of small RNAs present in soybean deep
sequencing libraries. Genet Mol Biol 35:292–303
Monzoorul Haque M, Ghosh TS, Komanduri D, Mande SS (2009) SOrt-ITEMS: Sequence
orthology based approach for improved taxonomic estimation of metagenomic sequences.
Bioinformatics 25:1722–1730
Morales SE, Cosart T, Holben WE (2010) Bacterial gene abundances as indicators of greenhouse
gas emission in soils. ISME J 4:799–808
Moran MA (2009) Metatranscriptomics: eavesdropping on complex microbial communities.
Microbe 4:329–335
Morgan XC, Huttenhower C (2014) Meta-omic analytic techniques for studying the intestinal
microbiome. Gastroenterology 146:1437–1448
Mossa AW, Dickinson MJ, West HM, Young SD, Crout NM (2017) The response of soil microbial
diversity and abundance to long-term application of biosolids. Environ Pollut 224:16–25
Mukherjee S, Stamatis D, Bertsch J, Ovchinnikova G, Verezemska O, Isbandi M, Thomas AD,
Ali R, Sharma K, Kyrpides NC, Reddy TB (2017) Data updates and feature enhancements.
Nucleic Acids Res 45:D446–D456
Muller J, Szklarczyk D, Julien P, Letunic I, Roth A, Kuhn M, Powell S, von Mering C, Doerks
T, Jensen LJ, Bork P (2010) extending the evolutionary genealogy of genes with enhanced
non-supervised orthologous groups, species and functional annotations. Nucleic Acids Res
38:D190–D195
Muyzer G (1999) DGGE/TGGE a method for identifying genes from natural ecosystems.
Curr Opin Microbiol 2:317–322
Nadeem SM, Ahmad M, Zahir ZA, Javaid A, Ashra M (2014) The role of mycorrhizae and
plant growth promoting rhizobacteria (PGPR) in improving crop productivity under stressful
environments. Biotechnol Adv 32:429–448
Nalbantoglu OU, Way SF, Hinrichs SH, Sayood K (2011) RAIphy: phylogenetic classification
of metagenomics samples using iterative refinement of relative abundance index profiles.
BMC Bioinform 12:41. https://doi.org/10.1186/1471-2105-12-41
Namiki T, Hachiya T, Tanaka H, Sakakibara Y (2012) MetaVelvet: an extension of Velvet
assembler to de novo metagenome assembly from short sequence reads. Nucleic Acids Res
40:e155
Nannipieri P, Smalla K (2006) Role of stabilised enzymes in microbial ecology and enzyme
extraction from soil with potential applications in soil proteomics nucleic acids and proteins in
soil. Springer, Berlin/Heidelberg, pp 75–94
Nautiyal CS, Srivastava S, Chauhan PS, Seem K, Mishra A, Sopory SK (2013) Plant growthpromoting bacteria Bacillus amyloliquefaciens NBRISN13 modulates gene expression profile
of leaf and rhizosphere community in rice during salt stress. Plant Physiol Biochem 66:1–9
Navin N et al (2011) Tumour evolution inferred by single-cell sequencing. Nature 472:90–94
Neiverth A, Delai S, Garcia DM, Saatkamp K, Souza EM, Pedrosa FO, Guimarães VF, Santos MF,
Vendruscolo ECG, Costa ACT (2014) Performance of different wheat genotypes inoculated
with the plant growth promoting bacterium Herbaspirillum seropedicae. Eur J Soil Biol 64:1–5.
https://doi.org/10.1016/j.ejsobi.2014.07.001
Neufeld JD, Dumont MG, Vohra J, Murrell JC (2007) Methodological considerations for the use
of stable isotope probing in microbial ecology. Microb Ecol 53:435–442
Noguchi H, Taniguchi T, Itoh T (2008) MetaGeneAnnotator: detecting species-specific patterns
of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage
genomes. DNA Res 15:387–396
Novotný Č, Vyas BRM, Erbanova P, Kubatova A, Šašek V (1997) Removal of PCBs by various
white rot fungi in liquid cultures. Folia Microbiol 42:136–140
NRSC I (2011) Wastelands Atlas of India 2011: change analysis based on temporal satellite data of
2005–06 and 2008–09. National Remote Sensing Centre (NRSC), Hyderabad
References
Molina LG, Cordenonsi da Fonseca G, Morais GLD, de Oliveira LFV, Carvalho JBD, Kulcheski
FR, Margis R (2012) Metatranscriptomic analysis of small RNAs present in soybean deep
sequencing libraries. Genet Mol Biol 35:292–303
Monzoorul Haque M, Ghosh TS, Komanduri D, Mande SS (2009) SOrt-ITEMS: Sequence
orthology based approach for improved taxonomic estimation of metagenomic sequences.
Bioinformatics 25:1722–1730
Morales SE, Cosart T, Holben WE (2010) Bacterial gene abundances as indicators of greenhouse
gas emission in soils. ISME J 4:799–808
Moran MA (2009) Metatranscriptomics: eavesdropping on complex microbial communities.
Microbe 4:329–335
Morgan XC, Huttenhower C (2014) Meta-omic analytic techniques for studying the intestinal
microbiome. Gastroenterology 146:1437–1448
Mossa AW, Dickinson MJ, West HM, Young SD, Crout NM (2017) The response of soil microbial
diversity and abundance to long-term application of biosolids. Environ Pollut 224:16–25
Mukherjee S, Stamatis D, Bertsch J, Ovchinnikova G, Verezemska O, Isbandi M, Thomas AD,
Ali R, Sharma K, Kyrpides NC, Reddy TB (2017) Data updates and feature enhancements.
Nucleic Acids Res 45:D446–D456
Muller J, Szklarczyk D, Julien P, Letunic I, Roth A, Kuhn M, Powell S, von Mering C, Doerks
T, Jensen LJ, Bork P (2010) extending the evolutionary genealogy of genes with enhanced
non-supervised orthologous groups, species and functional annotations. Nucleic Acids Res
38:D190–D195
Muyzer G (1999) DGGE/TGGE a method for identifying genes from natural ecosystems.
Curr Opin Microbiol 2:317–322
Nadeem SM, Ahmad M, Zahir ZA, Javaid A, Ashra M (2014) The role of mycorrhizae and
plant growth promoting rhizobacteria (PGPR) in improving crop productivity under stressful
environments. Biotechnol Adv 32:429–448
Nalbantoglu OU, Way SF, Hinrichs SH, Sayood K (2011) RAIphy: phylogenetic classification
of metagenomics samples using iterative refinement of relative abundance index profiles.
BMC Bioinform 12:41. https://doi.org/10.1186/1471-2105-12-41
Namiki T, Hachiya T, Tanaka H, Sakakibara Y (2012) MetaVelvet: an extension of Velvet
assembler to de novo metagenome assembly from short sequence reads. Nucleic Acids Res
40:e155
Nannipieri P, Smalla K (2006) Role of stabilised enzymes in microbial ecology and enzyme
extraction from soil with potential applications in soil proteomics nucleic acids and proteins in
soil. Springer, Berlin/Heidelberg, pp 75–94
Nautiyal CS, Srivastava S, Chauhan PS, Seem K, Mishra A, Sopory SK (2013) Plant growthpromoting bacteria Bacillus amyloliquefaciens NBRISN13 modulates gene expression profile
of leaf and rhizosphere community in rice during salt stress. Plant Physiol Biochem 66:1–9
Navin N et al (2011) Tumour evolution inferred by single-cell sequencing. Nature 472:90–94
Neiverth A, Delai S, Garcia DM, Saatkamp K, Souza EM, Pedrosa FO, Guimarães VF, Santos MF,
Vendruscolo ECG, Costa ACT (2014) Performance of different wheat genotypes inoculated
with the plant growth promoting bacterium Herbaspirillum seropedicae. Eur J Soil Biol 64:1–5.
https://doi.org/10.1016/j.ejsobi.2014.07.001
Neufeld JD, Dumont MG, Vohra J, Murrell JC (2007) Methodological considerations for the use
of stable isotope probing in microbial ecology. Microb Ecol 53:435–442
Noguchi H, Taniguchi T, Itoh T (2008) MetaGeneAnnotator: detecting species-specific patterns
of ribosomal binding site for precise gene prediction in anonymous prokaryotic and phage
genomes. DNA Res 15:387–396
Novotný Č, Vyas BRM, Erbanova P, Kubatova A, Šašek V (1997) Removal of PCBs by various
white rot fungi in liquid cultures. Folia Microbiol 42:136–140
NRSC I (2011) Wastelands Atlas of India 2011: change analysis based on temporal satellite data of
2005–06 and 2008–09. National Remote Sensing Centre (NRSC), Hyderabad
References