메뉴 건너뛰기




Volumn 6, Issue , 2017, Pages 51-57

Model microbial communities for ecosystems biology

Author keywords

[No Author keywords available]

Indexed keywords

BIOLOGY; HUMAN; MICROBIAL COMMUNITY;

EID: 85045220281     PISSN: None     EISSN: 24523100     Source Type: Journal    
DOI: 10.1016/j.coisb.2017.09.002     Document Type: Review
Times cited : (43)

References (72)
  • 2
    • 70350261490 scopus 로고    scopus 로고
    • What is microbial community ecology?
    • Konopka A: What is microbial community ecology? ISME J 2009, 3:1223-1230.
    • (2009) ISME J , vol.3 , pp. 1223-1230
    • Konopka, A.1
  • 3
    • 85018356716 scopus 로고    scopus 로고
    • The ecology of acidophilic microorganisms in the corroding concrete sewer environment
    • Li X, Jiang G, Kappler U, Bond P: The ecology of acidophilic microorganisms in the corroding concrete sewer environment. Front Microbiol 2017, 8:683.
    • (2017) Front Microbiol , vol.8 , pp. 683
    • Li, X.1    Jiang, G.2    Kappler, U.3    Bond, P.4
  • 7
    • 84966658387 scopus 로고    scopus 로고
    • Microbial regulation of the soil carbon cycle: evidence from gene -enzyme relationships
    • Trivedi P, Delgado-baquerizo M, Trivedi C, Hu H: Microbial regulation of the soil carbon cycle: evidence from gene -enzyme relationships. ISME J 2016, 10:2593-2604, http:// dx.doi.org/10.1038/ismej.2016.65.
    • (2016) ISME J , vol.10 , pp. 2593-2604
    • Trivedi, P.1    Delgado-baquerizo, M.2    Trivedi, C.3    Hu, H.4
  • 8
    • 84939818228 scopus 로고    scopus 로고
    • Experimental insights into the importance of aquatic bacterial community composition to the degradation of dissolved organic matter
    • Logue JB, Stedmon CA, Kellerman AM, Nielsen NJ, Andersson AF, Laudon H, Lindström ES, Kritzberg ES: Experimental insights into the importance of aquatic bacterial community composition to the degradation of dissolved organic matter. ISME J 2016, 10:533-545, http://dx.doi.org/ 10.1038/ismej.2015.131.
    • (2016) ISME J , vol.10 , pp. 533-545
    • Logue, J.B.1    Stedmon, C.A.2    Kellerman, A.M.3    Nielsen, N.J.4    Andersson, A.F.5    Laudon, H.6    Lindström, E.S.7    Kritzberg, E.S.8
  • 9
    • 84989325797 scopus 로고    scopus 로고
    • Current state of knowledge in microbial degradation of polycyclic aromatic hydrocarbons (PAHs): a review
    • Ghosal D, Ghosh S, Dutta TK, Ahn Y: Current state of knowledge in microbial degradation of polycyclic aromatic hydrocarbons (PAHs): a review. Front Microbiol 2016, 7.
    • (2016) Front Microbiol , vol.7
    • Ghosal, D.1    Ghosh, S.2    Dutta, T.K.3    Ahn, Y.4
  • 16
    • 84903741051 scopus 로고    scopus 로고
    • Niche engineering demonstrates a latent capacity for fungal-algal mutualism
    • Hom EFY, Murray AW: Niche engineering demonstrates a latent capacity for fungal-algal mutualism. Science 2014, 345:94-98.
    • (2014) Science , vol.345 , pp. 94-98
    • Hom, E.F.Y.1    Murray, A.W.2
  • 19
    • 84867746452 scopus 로고    scopus 로고
    • Metabolic specialization and the assembly of microbial communities
    • Johnson DR, Goldschmidt F, Lilja EE, Ackermann M: Metabolic specialization and the assembly of microbial communities. ISME J 2012, 6:1985-1991.
    • (2012) ISME J , vol.6 , pp. 1985-1991
    • Johnson, D.R.1    Goldschmidt, F.2    Lilja, E.E.3    Ackermann, M.4
  • 20
    • 84861212982 scopus 로고    scopus 로고
    • Working together for the common good: cell-cell communication in bacteria
    • Stevens AM, Schuster M, Rumbaugh KP: Working together for the common good: cell-cell communication in bacteria. J Bacteriol 2012, 194:2131-2141.
    • (2012) J Bacteriol , vol.194 , pp. 2131-2141
    • Stevens, A.M.1    Schuster, M.2    Rumbaugh, K.P.3
  • 21
    • 84939233322 scopus 로고    scopus 로고
    • Metabolic interactions in microbial communities: untangling the Gordian knot
    • Ponomarova O, Patil KR: Metabolic interactions in microbial communities: untangling the Gordian knot. Curr Opin Microbiol 2015, 27:37-44.
    • (2015) Curr Opin Microbiol , vol.27 , pp. 37-44
    • Ponomarova, O.1    Patil, K.R.2
  • 22
    • 27944442272 scopus 로고    scopus 로고
    • Quorum sensing: cell-to-cell communication in bacteria
    • Waters CM, Bassler BL: Quorum sensing: cell-to-cell communication in bacteria. Annu Rev Cell Dev Biol 2005, 21: 319-346.
    • (2005) Annu Rev Cell Dev Biol , vol.21 , pp. 319-346
    • Waters, C.M.1    Bassler, B.L.2
  • 23
    • 0035158661 scopus 로고    scopus 로고
    • Shigella flexneri LuxS quorum-sensing system modulates virB expression but is not essential for virulence
    • Day WAJ, Maurelli AT: Shigella flexneri LuxS quorum-sensing system modulates virB expression but is not essential for virulence. Infect Immun 2001, 69:15-23.
    • (2001) Infect Immun , vol.69 , pp. 15-23
    • Day, W.A.J.1    Maurelli, A.T.2
  • 24
    • 84979583990 scopus 로고    scopus 로고
    • Spatial structure, cooperation and competition in biofilms
    • Nadell CD, Drescher K, Foster KR: Spatial structure, cooperation and competition in biofilms. Nat Publ Gr 2016, 14: 589-600.
    • (2016) Nat Publ Gr , vol.14 , pp. 589-600
    • Nadell, C.D.1    Drescher, K.2    Foster, K.R.3
  • 27
    • 85028139411 scopus 로고    scopus 로고
    • Synthetic microbial ecosystems: an exciting tool to understand and apply microbial communities
    • De Roy K, Marzorati M, Van den Abbeele P, Van de Wiele T, Boon N: Synthetic microbial ecosystems: an exciting tool to understand and apply microbial communities. Environ Microbiol 2014, 16:1472-1481.
    • (2014) Environ Microbiol , vol.16 , pp. 1472-1481
    • De Roy, K.1    Marzorati, M.2    Van den Abbeele, P.3    Van de Wiele, T.4    Boon, N.5
  • 29
    • 84926433439 scopus 로고    scopus 로고
    • Fermented foods as experimentally tractable microbial ecosystems
    • Wolfe BE, Dutton RJ: Fermented foods as experimentally tractable microbial ecosystems. Cell 2015, 161:49-55.
    • (2015) Cell , vol.161 , pp. 49-55
    • Wolfe, B.E.1    Dutton, R.J.2
  • 31
    • 84899413958 scopus 로고    scopus 로고
    • Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community
    • Embree M, Nagarajan H, Movahedi N, Chitsaz H, Zengler K: Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community. ISME J 2014, 8:757-767.
    • (2014) ISME J , vol.8 , pp. 757-767
    • Embree, M.1    Nagarajan, H.2    Movahedi, N.3    Chitsaz, H.4    Zengler, K.5
  • 32
    • 84969504890 scopus 로고    scopus 로고
    • Human microbiota-associated mice: a model with challenges
    • Arrieta MC, Walter J, Finlay BB: Human microbiota-associated mice: a model with challenges. Cell Host Microbe 2016, 19: 575-578.
    • (2016) Cell Host Microbe , vol.19 , pp. 575-578
    • Arrieta, M.C.1    Walter, J.2    Finlay, B.B.3
  • 33
    • 84956661593 scopus 로고    scopus 로고
    • Incorporating the gut microbiota into models of human and non-human primate ecology and evolution
    • Amato KR: Incorporating the gut microbiota into models of human and non-human primate ecology and evolution. Am J Phys Anthropol 2016, 159:S196-S215.
    • (2016) Am J Phys Anthropol , vol.159 , pp. S196-S215
    • Amato, K.R.1
  • 34
    • 0018820263 scopus 로고
    • Microbial secondary metabolism
    • Malik VS: Microbial secondary metabolism. Trends Biochem Sci 1980, 5:68-72.
    • (1980) Trends Biochem Sci , vol.5 , pp. 68-72
    • Malik, V.S.1
  • 35
    • 84962491989 scopus 로고    scopus 로고
    • Studying bacterial multispecies biofilms: where to start?
    • Røder HL, Sørensen SJ, Burmølle M: Studying bacterial multispecies biofilms: where to start? Trends Microbiol 2016, 24:503-513.
    • (2016) Trends Microbiol , vol.24 , pp. 503-513
    • Røder, H.L.1    Sørensen, S.J.2    Burmølle, M.3
  • 37
    • 84986005229 scopus 로고    scopus 로고
    • Cell-to-cell heterogeneity emerges as consequence of metabolic cooperation in a synthetic yeast community
    • Campbell K, Vowinckel J, Ralser M: Cell-to-cell heterogeneity emerges as consequence of metabolic cooperation in a synthetic yeast community. Biotechnol J. 2016, 11:1169-1178, http://dx.doi.org/10.1002/biot.201500301.
    • (2016) Biotechnol J. , vol.11 , pp. 1169-1178
    • Campbell, K.1    Vowinckel, J.2    Ralser, M.3
  • 38
    • 84907741816 scopus 로고    scopus 로고
    • Adaptive evolution of synthetic cooperating communities improves growth performance
    • Zhang X, Reed JL: Adaptive evolution of synthetic cooperating communities improves growth performance. PLoS One 2014:9.
    • (2014) PLoS One , vol.9
    • Zhang, X.1    Reed, J.L.2
  • 40
    • 79951705599 scopus 로고    scopus 로고
    • Intercellular nanotubes mediate bacterial communication
    • Dubey GP, Ben-Yehuda S: Intercellular nanotubes mediate bacterial communication. Cell 2011, 144:590-600.
    • (2011) Cell , vol.144 , pp. 590-600
    • Dubey, G.P.1    Ben-Yehuda, S.2
  • 43
    • 77956415336 scopus 로고    scopus 로고
    • Emergent cooperation in microbial metabolism
    • Wintermute EH, Silver PA: Emergent cooperation in microbial metabolism. Mol Syst Biol 2010, 6:407.
    • (2010) Mol Syst Biol , vol.6 , pp. 407
    • Wintermute, E.H.1    Silver, P.A.2
  • 44
    • 84927693444 scopus 로고    scopus 로고
    • High prevalence of biofilm synergy among bacterial soil isolates in cocultures indicates bacterial interspecific cooperation
    • Ren D, Madsen JS, Sørensen SJ, Burmølle M: High prevalence of biofilm synergy among bacterial soil isolates in cocultures indicates bacterial interspecific cooperation. ISME J 2015, 9: 81-89.
    • (2015) ISME J , vol.9 , pp. 81-89
    • Ren, D.1    Madsen, J.S.2    Sørensen, S.J.3    Burmølle, M.4
  • 46
    • 84907841705 scopus 로고    scopus 로고
    • Synthetic microbial consortia: from systematic analysis to construction and applications
    • Song H, Ding M-Z, Jia X-Q, Ma Q, Yuan Y-J: Synthetic microbial consortia: from systematic analysis to construction and applications. Chem Soc Rev Chem Soc Rev 2014, 6954: 6954-6981.
    • (2014) Chem Soc Rev Chem Soc Rev , vol.6954 , pp. 6954-6981
    • Song, H.1    Ding, M-Z.2    Jia, X-Q.3    Ma, Q.4    Yuan, Y-J.5
  • 48
    • 84919933276 scopus 로고    scopus 로고
    • Comparative analysis of microbial community of novel lactic acid fermentation inoculated with different undefined mixed cultures
    • Liang S, Gliniewicz K, Mendes-Soares H, Settles ML, Forney LJ, Coats ER, McDonald AG: Comparative analysis of microbial community of novel lactic acid fermentation inoculated with different undefined mixed cultures. Bioresour Technol 2015, 179:268-274.
    • (2015) Bioresour Technol , vol.179 , pp. 268-274
    • Liang, S.1    Gliniewicz, K.2    Mendes-Soares, H.3    Settles, M.L.4    Forney, L.J.5    Coats, E.R.6    McDonald, A.G.7
  • 49
    • 84976351728 scopus 로고    scopus 로고
    • Bioengineering microbial communities: their potential to help, hinder and disgust
    • Sivasubramaniam D, Franks AE: Bioengineering microbial communities: their potential to help, hinder and disgust. Bioengineered 2016, 7:137-144.
    • (2016) Bioengineered , vol.7 , pp. 137-144
    • Sivasubramaniam, D.1    Franks, A.E.2
  • 50
    • 84879016225 scopus 로고    scopus 로고
    • Bioremediation: a genuine technology to remediate radionuclides from the environment
    • Prakash D, Gabani P, Chandel AK, Ronen Z, Singh OV: Bioremediation: a genuine technology to remediate radionuclides from the environment. Microb Biotechnol 2013, 6:349-360.
    • (2013) Microb Biotechnol , vol.6 , pp. 349-360
    • Prakash, D.1    Gabani, P.2    Chandel, A.K.3    Ronen, Z.4    Singh, O.V.5
  • 52
    • 78149380589 scopus 로고    scopus 로고
    • A human gastric simulator (HGS) to study food digestion in human stomach
    • Kong F, Singh RP: A human gastric simulator (HGS) to study food digestion in human stomach. J Food Sci 2010:75.
    • (2010) J Food Sci , vol.75
    • Kong, F.1    Singh, R.P.2
  • 55
    • 84904578387 scopus 로고    scopus 로고
    • Cheese rind communities provide tractable systems for in situ and in vitro studies of microbial diversity
    • Wolfe BE, Button JE, Santarelli M, Dutton RJ: Cheese rind communities provide tractable systems for in situ and in vitro studies of microbial diversity. Cell 2014, 158:422-433.
    • (2014) Cell , vol.158 , pp. 422-433
    • Wolfe, B.E.1    Button, J.E.2    Santarelli, M.3    Dutton, R.J.4
  • 56
    • 70349246812 scopus 로고    scopus 로고
    • Identification of lactic acid bacteria isolated from Tarhana, a traditional Turkish fermented food
    • Sengun IY, Nielsen DS, Karapinar M, Jakobsen M: Identification of lactic acid bacteria isolated from Tarhana, a traditional Turkish fermented food. Int J Food Microbiol 2009, 135: 105-111.
    • (2009) Int J Food Microbiol , vol.135 , pp. 105-111
    • Sengun, I.Y.1    Nielsen, D.S.2    Karapinar, M.3    Jakobsen, M.4
  • 57
    • 84973449038 scopus 로고    scopus 로고
    • The microbiota and health promoting characteristics of the fermented beverage kefir
    • Bourrie BCT, Willing BP, Cotter PD: The microbiota and health promoting characteristics of the fermented beverage kefir. Front Microbiol 2016, 7:1-17.
    • (2016) Front Microbiol , vol.7 , pp. 1-17
    • Bourrie, B.C.T.1    Willing, B.P.2    Cotter, P.D.3
  • 58
    • 84870266477 scopus 로고    scopus 로고
    • The evolution of mutualism in gut microbiota via host epithelial selection
    • Schluter J, Foster KR: The evolution of mutualism in gut microbiota via host epithelial selection. PLoS Biol 2012:10.
    • (2012) PLoS Biol , vol.10
    • Schluter, J.1    Foster, K.R.2
  • 59
    • 84878699293 scopus 로고    scopus 로고
    • The role of gut microbiota in the pathogenesis of colorectal cancer
    • Zhu Q, Gao R, Wu W, Qin H: The role of gut microbiota in the pathogenesis of colorectal cancer. Tumor Biol 2013, 34: 1285-1300.
    • (2013) Tumor Biol , vol.34 , pp. 1285-1300
    • Zhu, Q.1    Gao, R.2    Wu, W.3    Qin, H.4
  • 62
    • 84888627445 scopus 로고    scopus 로고
    • Effects of triclosan and biosolids on microbial community composition in an agricultural soil
    • Park I, Zhang N, Ogunyoku TA, Young TM, Scow KM: Effects of triclosan and biosolids on microbial community composition in an agricultural soil. Water Environ Res 2013, 85:2237-2242.
    • (2013) Water Environ Res , vol.85 , pp. 2237-2242
    • Park, I.1    Zhang, N.2    Ogunyoku, T.A.3    Young, T.M.4    Scow, K.M.5
  • 63
    • 79951810368 scopus 로고    scopus 로고
    • Functional gene diversity of soil microbial communities from five oil-contaminated fields in China
    • Liang Y, Van Nostrand JD, Deng Y, He Z, Wu L, Zhang X, Li G, Zhou J: Functional gene diversity of soil microbial communities from five oil-contaminated fields in China. ISME J 2011, 5:403-413.
    • (2011) ISME J , vol.5 , pp. 403-413
    • Liang, Y.1    Van Nostrand, J.D.2    Deng, Y.3    He, Z.4    Wu, L.5    Zhang, X.6    Li, G.7    Zhou, J.8
  • 64
    • 84927516837 scopus 로고    scopus 로고
    • Field-based evidence for consistent responses of bacterial communities to copper contamination in two contrasting agricultural soils
    • Li J, Ma YB, Hu HW, Wang JT, Liu YR, He JZ: Field-based evidence for consistent responses of bacterial communities to copper contamination in two contrasting agricultural soils. Front Microbiol 2015, 6:1-11.
    • (2015) Front Microbiol , vol.6 , pp. 1-11
    • Li, J.1    Ma, Y.B.2    Hu, H.W.3    Wang, J.T.4    Liu, Y.R.5    He, J.Z.6
  • 65
    • 58849149386 scopus 로고    scopus 로고
    • Effects of heavy metal contamination upon soil microbes: lead-induced changes in general and denitrifying microbial communities as evidenced by molecular markers
    • Sobolev D, Begonia MFT: Effects of heavy metal contamination upon soil microbes: lead-induced changes in general and denitrifying microbial communities as evidenced by molecular markers. Int J Environ Res Public Health 2008, 5: 450-456.
    • (2008) Int J Environ Res Public Health , vol.5 , pp. 450-456
    • Sobolev, D.1    Begonia, M.F.T.2
  • 67
    • 21244492315 scopus 로고    scopus 로고
    • Interactions between Saccharomyces cerevisiae and malolactic bacteria: preliminary characterization of a yeast proteinaceous compound(s) active against Oenococcus oeni
    • Comitini F, Ferretti R, Clementi F, Mannazzu I, Ciani M: Interactions between Saccharomyces cerevisiae and malolactic bacteria: preliminary characterization of a yeast proteinaceous compound(s) active against Oenococcus oeni. J Appl Microbiol 2005, 99:105-111.
    • (2005) J Appl Microbiol , vol.99 , pp. 105-111
    • Comitini, F.1    Ferretti, R.2    Clementi, F.3    Mannazzu, I.4    Ciani, M.5
  • 68
    • 84892263204 scopus 로고    scopus 로고
    • Organisms associated with acetic acid bacteria in vinegar production
    • Rainieri S, Zambonelli C: Organisms associated with acetic acid bacteria in vinegar production. Vinegars World 2009, http://dx.doi.org/10.1007/978-88-470-0866-3_5.
    • (2009) Vinegars World
    • Rainieri, S.1    Zambonelli, C.2
  • 69
    • 84889091927 scopus 로고    scopus 로고
    • Acetic acid bacteria taxonomy from early descriptions to molecular techniques
    • Gullo M, Giudici P: Acetic acid bacteria taxonomy from early descriptions to molecular techniques. Vinegars World 2009, http://dx.doi.org/10.1007/978-88-470-0866-3_3.
    • (2009) Vinegars World
    • Gullo, M.1    Giudici, P.2
  • 70
    • 69749114507 scopus 로고    scopus 로고
    • Biodiversity, ecological determinants, and metabolic exploitation of sourdough microbiota
    • De Vuyst L, Vrancken G, Ravyts F, Rimaux T, Weckx S: Biodiversity, ecological determinants, and metabolic exploitation of sourdough microbiota. Food Microbiol 2009, 26:666-675.
    • (2009) Food Microbiol , vol.26 , pp. 666-675
    • De Vuyst, L.1    Vrancken, G.2    Ravyts, F.3    Rimaux, T.4    Weckx, S.5
  • 71
    • 84880445186 scopus 로고    scopus 로고
    • Sequencing-based analysis of the bacterial and fungal composition of kefir grains and milks from multiple sources
    • Marsh AJ, O'Sullivan O, Hill C, Ross RP, Cotter PD: Sequencing-based analysis of the bacterial and fungal composition of kefir grains and milks from multiple sources. PLoS One 2013, 8.
    • (2013) PLoS One , vol.8
    • Marsh, A.J.1    O'Sullivan, O.2    Hill, C.3    Ross, R.P.4    Cotter, P.D.5
  • 72
    • 19644369575 scopus 로고    scopus 로고
    • Continuous enrichment culture and molecular monitoring to investigate the microbial diversity of thermophiles inhabiting deep-sea hydrothermal ecosystems
    • Postec A, Urios L, Lesongeur F, Ollivier B, Querellou J, Godfroy A: Continuous enrichment culture and molecular monitoring to investigate the microbial diversity of thermophiles inhabiting deep-sea hydrothermal ecosystems. Curr Microbiol 2005, 50:138-144.
    • (2005) Curr Microbiol , vol.50 , pp. 138-144
    • Postec, A.1    Urios, L.2    Lesongeur, F.3    Ollivier, B.4    Querellou, J.5    Godfroy, A.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.