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Further Readings

Further Readings in Geomicrobiology

  • Angel R, Pasternak Z, Soares MIM, Conrad R, Gillor O. 2013. Active and total prokaryotic communities in dryland soils. FEMS Microbiology Ecology 86:130–138.
  • Bao Q-L, Xiao K-Q, Chen Z, Yao H-Y, Zhu Y-G. 2014. Methane production and methanogenic archaeal communities in two types of paddy soil amended with different amounts of rice straw. FEMS Microbiology Ecology 88:372–385.
  • Bentzon-Tilia M, Farnelid H, Jürgen K, Riemann L. 2014. Cultivation and isolation of N2-fixing bacteria from suboxic waters in the Baltic Sea. FEMS Microbiol Ecology 88:358–371.
  • Berdjeb L, Pollet T, Chardon C, Jacquet S. 2013. Spatio-temporal changes in the structure of archaeal communities in two deep freshwater lakes. FEMS Microbiology Ecology 86:215–230.
  • Boon E, Meehan CJ, Whidden C, Wong D H-J, Langille MGI, Beiko RG. 2014. Interactions in the microbiome: communities of organisms and communities of genes. FEMS Microbiology Reviews 38:90–118.
  • Boyd CD, Smith TJ, El-Kirat-Chatel S, Newell PD, Dufrêne, O’Toole GA. 2014. Structural features of the Pseudomonas fluorescens biofilm adhesion LapA required for LapG-dependent cleavage, biofilm formation and cell surface location. J Bacteriol 196:2775–2788.
  • Charvet S, Vincent WF, Lovejoy C. 2014. Effects of light and prey availability on Arctic freshwater protist communities examined by high-throughput DNA and RNA sequencing. FEMS Microbiology Ecology 88:550–564.
  • Chie K, Nashimoto H, Nagaosa K, Ishibashi T, Furuta K, Kinoshita T, Yoshikawa H, Aoki K, Asano T, Sasaki Y, Sohrin R, Komatsu DD, Tsunogai U, Kimura H, Suwa Y, Kato K. 2013. Occurrence and potential activity of denitrifiers and methanogens in groundwater at 140 m depth in Pliocene diatomaceous mudstone of northern Japan. FEMS Microbiology Ecology 86:532–543.
  • Cruaud P, Vigneron A, Lucchetti-Miganeh C, Ciron PE, Godfroy A, Cambon-Bonavita M-A. 2014. Influence of DNA extraction method, 16S rRNA targeted hypervariable regions, and sample origin on microbial diversity detected by 454 pyrosequencing in marine chemosynthetic ecosystems. Appl Environ Microbiol 80:4626–4639.
  • Elsaied H, Stokes HW, Yoshioka H, Mitani Y, Maruyama A. 2014. Novel integrons and gene cassettes from a Cascadian submarine gas-hydrate-bearing core. FEMS Microbiology Ecology 87:343–356.
  • Falagán C, Sánchez-España J, Johnson DB. 2014. New insights into the biogeochemistry of extremely acidic environments revealed by a combined cultivation-based and culture-independent study of two stratified pit lakes. FEMS Microbiology Ecology 87:231–243.
  • Fernádez AB, Ghai R, Martin-Cuadrado A-B, Sánchez-Porro C, Rodriguez-Valera F, Ventosa A. 2014. Prokaryotic taxonomic and metabolic diversity of an intermediate salinity hypersaline habitat assessed by metagenomics. FEMS Microbiology Ecology 88:623–635.
  • Figueredo CC, von Rückert G, Cupertino A, Pontes MA, Fernandes LA, Ribeiro SG, Maran NRC. 2014. Lack of nitrogen as a causing agent of Cylindrospermopsis raciborskii intermittent blooms in a small tropical reservoir. FEMS Microbiology Ecology 87:557–567.
  • Folsom JP, Parker AE, Carlson RP. 2014. Physiological and proteomic analysis of Escherichia coli iron-limited chemostat growth. J Bacteriol 196:2748–2761.
  • Garbeva P, Hordijk C, Gerards S, de Boer W. 2014. Volatiles produced by the mycophagous soil bacterium Collimonas. FEMS Microbiology Ecology 87:639–649.
  • Genendra G, De Muynck W, Ho A, Arvaniti EC, Hosseinkhani B, Ramos JA, Rahier H, Boon N. 2014. Formate oxidation-driven calcium carbonate precipitation by Methylocystis parvus. Appl Environ Microbiol 80:4659–4667.
  • Ginez LD, Osorio A, Poggio S. 2014. Localization of the outer membrane protein OmpA2 in Caulobacter crescentus depends on the position of the gene in the chromosome. J Bacteriol 196:2889–2900.
  • Glaubitz S, Abraham W-R, Jost G, Labrenz M, Jürgens K. 2014. Pyruvate utilization by a chemolithoautotrophic epsilonproteobacterial key player of pelagic Baltic Sea redoxclines. FEMS Microbiology Ecology 87:770–779.
  • Hudek L, Pearson LA, Michalczyk A, Neilan BA, Ackland ML. 2013. Molecular and cellular characterization of the zinc uptake (Znu) system of Nostoc punctiforme. FEMS Microbiology Ecology 86:149–171.
  • Ke X, Lu Y, Conrad R. 2014. Different behavior of methanogenic archaea and Thaumarcheota in rice field microcosms. FEMS Microbiology Ecology 87:18–29.
  • Kang S, Van Nostrand JD, Gough HL, He Z, Hazen TC, Stahl DA, Zhou J. 2013. Functional gene array-based analysis of microbial communities in heavy metals-contaminated lake sediments. FEMS Microbiology Ecology 86:200–214.
  • Koranda M, Kaiser C, Fuchslueger L, Kitzler B, Sessitsch A, Zechmeister-Bollenstern S, Richter A. 2014. Fungal and bacterial utilization of organic substrates depends on substrate complexity and N availability. FEMS Microbiology Ecology 87:142–152.
  • Krause S, Meima-Franke M, Hefting MM, Bodelier PLE. 2013. Spatial patterns of methanotrophic communities along a hydrological gradient in a riparian wetland. FEMS Microbiology Ecology 86:59–70.
  • Lee HJ, Kim SY, Kim PJ, Madsen EL, Jeon CO. 2014. Methane emission and dynamics of methanotrophic and methanogenic communities in a flooded rice field ecosystem. FEMS Microbiology Ecology 88:195–212.
  • Liu P, Yang Y, Lü Z, Lu Y. 2014. Response of a rice paddy soil methanogen to syntrophic growth as revealed by transcriptional analyses. Appl Environ Microbiol 80:4668–4676.
  • Mayer F, Müller V. 2014. Adaptations of anaerobic archaea to life under extreme energy limitations. FEMS Microbiology Reviews 38:449–472.
  • McMahon S, Parnell J. 2014. Weighing the deep continental biosphere. FEMS Microbiology Ecology 87:113–120.
  • Mohan AM, Hartsock A, Hammack RW, Vidic RD, Gregory KB. 2013. Microbial communities in flowback water impoundments from hydraulic fracturing for recovery of shale gas. FEMS Microbiology Ecology 86:567–580.
  • Møller AK, Barkay T, Hansen MA, Norman A, Hansen LH, Sørensen SJ, Boyd ES, Kroer N. 2014. Mercuric reductase genes (merA) and mercury resistance plasmids in High Arctic snow, freshwater and sea-ice brine. FEMS Microbiology Ecology 87:52–63.
  • Mora M, Bellack A, Ugele M, Hopf J, Wirth R. 2014. The temperature gradient-forming device, an accessory unit for normal light microscopes to study the biology of hyperthermophilic microorganisms. Appl Environ Microbiol 80:4764–4770.
  • Nair AV, Pradeep MA, Vijayan KK. 2014. Molecular approach for the rapid detection of Bacillus and Pseudomonas genera – dominant antagonistic groups – from diverse ecological niches using colony multiplex PCR. J Industr Microbiol Biotechnol 41:1085–1097.
  • Oikonomou A, Pachiadaki M, Stoeck T. 2014. Protistan grazing in a meromictic freshwater lake with anoxic bottom water. FEMS Microbiology Ecology 87:691–703.
  • Osman OA, Gudasz C, Bertilsson S. 2014. Diversity and abundance of aromatic catabolic genes in lake sediments in response to temperature change. FEMS Microbiology Ecology 88:468–481.
  • Oueriaghli N, González-Domenech CM, Martínez-Checa F, Muyzer G, Ventosa A, Quesada E, Béjar V. 2014. Diversity and distribution of Halomonas in Rambla Salada, a hypersaline environment in the southeast of Spain. FEMS Microbiology Ecology 87:460–474.
  • Pérez-Rodríguez I, Bohnert KA, Cuebas M, Keddis R, Vetriani C. 2013. Detection and phylogenetic analysis of the membrane-bound nitrate reductase (Nar) in pure cultures and microbial communities from deep-sea hydrothermal vents. FEMS Microbiology Ecology 86:256–267.
  • Perner M, Gonnella G, Kurtz S, LaRoche J. 2014. Handling temperature bursts reaching 464°C: Different microbial strategies in the Sisters Peak hydrothermal chimney. Appl Environ Microbiol 80:4585–4598.
  • Putkinen A, Larmola T, Tuomivirta T, Siljanen HMP, Bodrossy L, Tuittila E_S, Fritze H. 2014. Peatland succession induces a shift in community composition of Sphagnum-associated active methanotrophs. FEMS Microbiology Ecology 88:596–611.
  • Rabouille S, Van de Waal DB, Matthijs HCP, Huisman J. 2014. Nitrogen fixation and respiratory electron transport in the cyanobacterium Cyanothece under different light/dark cycles. FEMS Microbiology Ecology 87:630–638.
  • Rotaru A-E, Shrestha PM, Liu F, Markovaite B, Chen S, Nevin KP, Lovley DR. 2014. Direct interspecies electron transfer between Geobacter metallireducens and Methanosarcina barkeri. Appl Environ Microbiol 80:4559–4605.
  • Rubin-Blum M, Antler G, Turchyn AV, Tsadok R, Goodman-Tchernov BN, Shemesh E, Austin JA Jr, Coleman DF, Makovsky Y, Sivan O, Tchernov D. 2014. Hydrocarbon-related microbial processes in the deep sediments of the Eastern Mediterranean Levantine Basin. FEMS Microbiology Ecology 87:780–796.
  • Shao S, Luan X Dang H, Zhou H, Zhao Y, Liu H, Zhang Y, Dai L, Ye Y, Klotz MG. 2014. Deep-sea methane seep sediments in the Okhotsk Sea sustain diverse and abundant anammox bacteria. FEMS Microbiology Ecology 87:503–506.
  • Sher Y, Zaady E, Nejidat A. 2013. Spatial and temporal diversity and abundance of ammonia oxidizers in semi-arid and arid soils: indications for a differential seasonal effect on archaeal and bacterial ammonia oxidizers. FEMS Microbiology Ecology 86:544–556.
  • Siegert M, Taubert M, Seifert J, von Bergen-Tomm M, Basen M, Bastida F, Gehre M, Richnow H-H, Krüger M. 2013. The nitrogen cycle in anaerobic methanotrophic mats of the Black Sea is linked to sulfate reduction and biomass decomposition. FEMS Microbiology Ecology 86:231–245.
  • Singh RP, Reddy CRK. 2014. Seaweed-microbial interactions: key functions of seaweed associated bacteria. FEMS Microbiology Ecology 88:213–230.
  • Stratil SB, Neulinger SC, Knecht H, Friedrichs AK, Wahl M. 2014. Salinity affects compositional traits of epibacterial communities on the brown macroalga Fucus vesiculosus. FEMS Microbiology Ecology 88:272–279.
  • Summers S, Whiteley AS, Kelly LC, Cockell CS. 2013. Land coverage influences the bacterial community composition in the critical zone of a sub-Arctic basaltic environment. FEMS Microbiology Ecology 86:381–393.
  • Tourna M, MacLean P, Condron L, O’Callaghan M, Wakelin SA. 2014. Links between sulphur oxidation and sulphur-oxidising bacteria abundance and diversity in soil microcosms based on soxB functional gene analysis. FEMS Microbiology Ecology 88:538–549.
  • Traving SJ, Clokie MRJ, Middelboe M. 2014. Increased acidification has a profound effect on the interaction between the cyanobacterium Synechococcus sp. WH7803 and its viruses. FEMS Microbiology Ecology 87:133–141.
  • Tripathi BM, Kim M, Lai-Hoe A, Shukor NAA, Rahim RA, Go R, Adams JM. 2013. pH dominates variation in tropical soil archaeal diversity and community structure. FEMS Microbiology Ecology 86:303–311.
  • Vandieken V, Finke N, Thamdrup B. 2014. Hydrogen, acetate, and lactate as electron donors for microbial manganese reduction in a manganese-rich coastal marine sediment. FEMS Microbiology Ecology 87:733–745.
  • Viti C, Marchi E, Decorosi F, Giovannetti L. 2014. Molecular mechanisms of Cr(VI) resistance in bacteria and fungi. FEMS Microbiology Reviews 38:633–659.
  • Volpicella M, Costanza A, Palumbo O, Italiano F, Claudia L, Placido A, Picardi E, Carella M, Trotta M, Ceci LR. 2014. Rhodobacter spheroides adaptation to high concentrations of cobalt ions requires energetic metabolism changes. FEMS Microbiology Ecology 88: 345–357.
  • Wang Y, Xu H, White RH. 2014. ß-Alanine biosynthesis in Methanocaldococcus jannaschii. J Bacteriol 196:2869–2875.
  • Wemheier B, Güllert S, Billerbeck S, Giebel H-A, Voget S, Simon M, Daniel R. 2014. Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches. FEMS Microbiology Ecology 87:378–389.
  • Wiegmann K, Hensler M, Wöhlbrand L, Ulbrich M, Schomburg D, Rabus R. 2014. Carbohydrate catabolism in Phaeobacter inhibens DSM 17395, a member of the marine Roseobacter clade. Appl Environ Microbiol 80:4725–4737.
  • Wilhelm SW, LeClair GR, Bullerjahn GS, McKay RM, Saxton MA, Twiss MR, Bourbonniere RA. 2014. Seasonal changes in microbial community structure and activity imply winter production is linked to summer hypoxia in a large lake. FEMS Microbiology Ecology 87:475–485.
  • Wouters K, Moors H, Boven P, Leys N. 2013. Evidence and characteristics of a diverse and metabolically active microbial community in deep subsurface clay borehole water. FEMS Microbiology Ecology 86:458–473.
  • Wu W, Swanner ED, Hao L, Zeitvogel F, Obst M, Pan Y, Kappler A. 2014. Characterization of the physiology and cell-mineral interactions of the marine anoxygenic phototrophic Fe(II) oxidizer Rhodovulum iodosum – implications for Precambrian Fe(II) oxidation. FEMS Microbiology 88:503–515.
  • Yanagawa K, Morono Y, Yoshida-Takashima Y, Eitoku M, Sunamara M, Inagaki F, Imachi H, Takai K, Nunoura T. 2014. Variability of subseafloor viral abundance at the geographically and geologically distinct continental margins. FEMS Microbiology Ecology 88:60–68.
  • Zhang R, Wu Q, Piceno YM, Desantis TZ, Saunders FM, Andersen GL, Liu W-T. 2013. Diversity of bacterioplankton in contrasting Tibetan lakes revealed by high-density microarray and clone library analysis. FEMS Microbiology Ecology 86:277–287.
  • Zhou S, Xu J, Yang G, Zhuang L. 2014. Methanogenesis affected by the co-occurrence of Fe(III) oxides and humic substances. FEMS Microbiology Ecology 88:107–120.

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