Assessment of Biolog Ecoplate

BiologTM Ecoplates, Sample’s conservation Functional diversity Metabolism Pigs’ microbiota

Journal

Applied microbiology and biotechnology
ISSN: 1432-0614
Titre abrégé: Appl Microbiol Biotechnol
Pays: Germany
ID NLM: 8406612

Informations de publication

Date de publication:
Aug 2021
Historique:
received: 23 03 2021
accepted: 29 06 2021
revised: 28 06 2021
pubmed: 24 7 2021
medline: 1 9 2021
entrez: 23 7 2021
Statut: ppublish

Résumé

In the last decades, gut microbiota and its role in mammal host development and health have been increasingly investigated. Metabolites produced by gut microbiota can affect intestinal homeostasis and immune system maturity and activation, and in turn, they can influence the health and growth performance of livestock. Therefore, a better understanding of the functional metabolic capability of the gut microbiota would be appreciated by the scientific community. In this study, the Biolog

Identifiants

pubmed: 34296337
doi: 10.1007/s00253-021-11449-x
pii: 10.1007/s00253-021-11449-x
pmc: PMC8390420
doi:

Substances chimiques

RNA, Ribosomal, 16S 0

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

6033-6045

Commentaires et corrections

Type : ErratumIn

Informations de copyright

© 2021. The Author(s).

Références

Aßhauer KP, Wemheuer B, Daniel R, Meinicke P (2015) Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data. Bioinformatics 31:2882–2884
pubmed: 25957349 pmcid: 4547618 doi: 10.1093/bioinformatics/btv287
Bardócz S, Duguid TJ, Brown DS, Grant G, Pusztai A, White A, Ralph A (1995) The importance of dietary polyamines in cell regeneration and growth. Br J Nutr 73:819–828
pubmed: 7632663 doi: 10.1079/BJN19950087
Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP (2016) DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods 13:581–583
pubmed: 27214047 pmcid: 4927377 doi: 10.1038/nmeth.3869
Callejón S, Sendra R, Ferrer S, Pardo I (2014) Identification of a novel enzymatic activity from lactic acid bacteria able to degrade biogenic amines in wine. Appl Microbiol Biotechnol 98:185–198
pubmed: 23515835 doi: 10.1007/s00253-013-4829-6
Chen L, Xu Y, Chen X, Fang C, Zhao L, Chen F (2017) The maturing development of gut microbiota in commercial piglets during the weaning transition. Front Microbiol 8:1688
pubmed: 28928724 pmcid: 5591375 doi: 10.3389/fmicb.2017.01688
Crespo-Piazuelo D, Estellé J, Revilla M, Criado-Mesas L, Ramayo-Caldas Y, Óvilo C, Fernandez AI, Balllester M, Folch JM (2018) Characterization of bacterial microbiota compositions along the intestinal tract in pigs and their interactions and functions. Sci Rep 8(1):1–12
doi: 10.1038/s41598-018-30932-6
Dai ZL, Zhang J, Wu G, Zhu WY (2010) Utilization of amino acids by bacteria from the pig small intestine. J. Amino Acids 39:1201–1215
pubmed: 20300787 doi: 10.1007/s00726-010-0556-9
Daly K, Darby AC, Hall N, Nau A, Bravo D, Shirazi-Beechey SP (2014) Dietary supplementation with lactose or artificial sweetener enhances swine gut Lactobacillus population abundance. Br J Nutr 111:S30–S35
pubmed: 24382146 doi: 10.1017/S0007114513002274
David L, Maurice C, Carmody R, Gootengerg D, Button J, Wolfe B, Ling AV, Devlin AS, Varma Y, FischBach MA, Biddinger SB, Dutton RJ, Turnbaugh PJ (2014) Diet rapidly and reproducibly alters the human gut microbiome. Nature 505:559–563
pubmed: 24336217 doi: 10.1038/nature12820
De Fede KL, Panaccione DG, Sexstone AJ (2001) Characterization of dilution enrichment cultures obtained from size-fractionated soil bacteria by BIOLOG® community-level physiological profiles and restriction analysis of 16S rRNA genes. Soil Biol Biochem 33(11):1555–1562
doi: 10.1016/S0038-0717(01)00075-X
Dhariwal A, Chong J, Habib S, King IL, Agellon LB, Xia J (2017) MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data. Nucleic Acids Res 45:W180–W188
pubmed: 28449106 pmcid: 5570177 doi: 10.1093/nar/gkx295
Gałązka A, Gawryjołek K, Grządziel J, Frąc M, Księżak J (2017) Microbial community diversity and the interaction of soil under maize growth in different cultivation techniques. Plant Soil Environ 63:264–270
doi: 10.17221/171/2017-PSE
Ge Z, Du H, Gao Y, Qiu W (2018) Analysis on metabolic functions of stored rice microbial communities by BIOLOG ECO microplates. Front Microbiol 9:1375
pubmed: 30018600 pmcid: 6037723 doi: 10.3389/fmicb.2018.01375
Gryta A, Frąc M, Oszust K (2014) The application of the Biolog EcoPlate approach in ecotoxicological evaluation of dairy sewage sludge. Appl Microbiol Biotechnol 174:1434–1443
Grześkowiak Ł, Teske J, Zentek J, Vahjen W (2020) Distinct patterns of microbial metabolic fingerprints in sows and their offspring: a pilot study. Arch Microbiol 202:511–517
pubmed: 31707425 doi: 10.1007/s00203-019-01766-1
Gupta P, Samant K, Sahu A (2012) Isolation of cellulose-degrading bacteria and determination of their cellulolytic potential. Int J Microbiol 2012:1–5
doi: 10.1155/2012/578925
Han GG, Lee JY, Jin GD, Park J, Choi YH, Kang SK, Chae BJ, Kim EB, Choi YJ (2018) Tracing of the fecal microbiota of commercial pigs at five growth stages from birth to shipment. Sci Rep 8:1–9
Insam H (1997) Substrate utilization tests in microbial ecology: a preface to the special issue of the Journal of Microbiological Methods. J Microbiol Methods 30:1–2
doi: 10.1016/S0167-7012(97)00037-7
Ivarsson E, Roos S, Liu H, Lindberg J (2014) Fermentable non-starch polysaccharides increase the abundance of Bacteroides-Prevotella-Porphyromonas in ileal microbial community of growing pigs. Animal 8:1777–1787
pubmed: 25046106 doi: 10.1017/S1751731114001827
Kiros TG, Luise D, Derakhshani H, Petri R, Trevisi P, D’Inca R, Auclair E, van Kessel AG (2019) Effect of live yeast Saccharomyces cerevisiae supplementation on the performance and cecum microbial profile of suckling piglets. PLoS 14:e0219557
doi: 10.1371/journal.pone.0219557
Kong X, Wang C, Ji M (2013) Analysis of microbial metabolic characteristics in mesophilic and thermophilic biofilters using Biolog plate technique. Chem Eng J 230:415–421
doi: 10.1016/j.cej.2013.06.073
Kurihara S, Oda S, Tsuboi Y, Kim HG, Oshida M, Kumagai H, Suzuki H (2008) γ-Glutamylputrescine synthetase in the putrescine utilization pathway of Escherichia coli K-12. J Biol Chem 283:19981–19990
pubmed: 18495664 doi: 10.1074/jbc.M800133200
Le Floc’h N, Wessels A, Corrent E, Wu G, Bosi P (2018) The relevance of functional amino acids to support the health of growing pigs. Anim. Feed Sci Technol 245:104–116
doi: 10.1016/j.anifeedsci.2018.09.007
Lopes JC, Peixoto V, Coutinho A, Mota C and Fernandes S (2016) Determination of the community-level physiological profiles (CLPP) using BiologTM ECO-plates in the river Minho estuary sediments (Northern Portugal). Front Mar Sci Conference Abstract: IMMR | International Meeting on Marine Research 2016
Lynnes T, Horne S, Prüß B (2014) ß-phenylethylamine as a novel nutrient treatment to reduce bacterial contamination due to Escherichia coli O157: H7 on beef meat. Meat Sci 96:165–171
pubmed: 23896151 doi: 10.1016/j.meatsci.2013.06.030
Metzler-Zebeli BU, Lawlor PG, Magowan E, Zebeli Q (2016) Effect of freezing conditions on fecal bacterial composition in pigs. Animals 6:18
pmcid: 4810046 doi: 10.3390/ani6030018
Motta V, Luise D, Bosi P, Trevisi P (2019) Faecal microbiota shift during weaning transition in piglets and evaluation of AO blood types as shaping factor for the bacterial community profile. PloS 14:e0217001
doi: 10.1371/journal.pone.0217001
Najdegerami EH, Tran TN, Defoirdt T, Marzorati M, Sorgeloos P, Boon N, Bossier P (2012) Effects of poly-β-hydroxybutyrate (PHB) on Siberian sturgeon (Acipenser baerii) fingerlings performance and its gastrointestinal tract microbial community. FEMS Microbiol Ecol 79:25–33
pubmed: 22066757 doi: 10.1111/j.1574-6941.2011.01194.x
Núñez-Díaz JA, Balebona MC, Alcaide EM, Zorrilla I, Moriñigo MÁ (2017) Insights into the fecal microbiota of captive Iberian lynx (Lynx pardinus). Int J Microbiol 20(1):31–41
Pierce ML, Ward JE, Holohan BA, Zhao X, Hicks RE (2016) The influence of site and season on the gut and pallial fluid microbial communities of the eastern oyster, Crassostrea virginica (Bivalvia, Ostreidae): community-level physiological profiling and genetic structure. Hydrobiologia 765:97–113
doi: 10.1007/s10750-015-2405-z
Piotrowska M, Śliżewska K, Nowak A, Zielonka Ł, Żakowska Z, Gajęcka M, Gajęcki M (2014) The effect of experimental fusarium mycotoxicosis on microbiota diversity in porcine ascending colon contents. Toxins 6:2064–2081
pubmed: 25025709 pmcid: 4113742 doi: 10.3390/toxins6072064
Puertollano E, Kolida S, Yaqoob P (2014) Biological significance of short-chain fatty acid metabolism by the intestinal microbiome. Curr Opin Clin Nutr Metab Care 17:139–144
pubmed: 24389673 doi: 10.1097/MCO.0000000000000025
Putignani L, Del Chierico F, Petrucca A, Vernocchi P, Dallapiccola B (2014) The human gut microbiota: a dynamic interplay with the host from birth to senescence settled during childhood. Pediatr Res 76:2–10
pubmed: 24732106 doi: 10.1038/pr.2014.49
Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2012) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 41:D590–D596
pubmed: 23193283 pmcid: 3531112 doi: 10.1093/nar/gks1219
Ramayo-Caldas Y, Prenafeta-Boldú F, Zingaretti LM, Gonzalez-Rodriguez O, Dalmau A, Quintanilla R, Ballester M (2020) Gut eukaryotic communities in pigs: diversity, composition and host genetics contribution. Animal Microb 2:1–12
doi: 10.1186/s42523-020-00038-4
R Core Team (2018). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria
Stefanowicz A (2006) The Biolog Plates Technique as a Tool in Ecological Studies of Microbial Communities. Pol J Environ Stud 15(5)
Szabó KÉ, Itor PO, Bertilsson S, Tranvik L, Eiler A (2007) Importance of rare and abundant populations for the structure and functional potential of freshwater bacterial communities. Aquat Microb Ecol 47:1–10
doi: 10.3354/ame047001
Takahashi N, Yamada T (2000) Glucose metabolism by Prevotella intermedia and Prevotella nigrescens. Oral Microbiol Immunol 15:188–195
pubmed: 11154402 doi: 10.1034/j.1399-302x.2000.150307.x
Tremaroli V, Bäckhed F (2012) Functional interactions between the gut microbiota and host metabolism. Nature 489:242–249
pubmed: 22972297 doi: 10.1038/nature11552
Trevisi P, Priori D, Jansman AJ, Luise D, Koopmans SJ, Hynönen U, Palva A, Van Der Meulen J, Bosi P (2018) Molecular networks affected by neonatal microbial colonization in porcine jejunum, luminally perfused with enterotoxigenic Escherichia coli, F4ac fimbria or Lactobacillus amylovorus. PLoS 13:e0202160
doi: 10.1371/journal.pone.0202160
Umu ÖCO, Mydland LT, Øverland M, Press CM, Sørum H (2020) Rapeseed-based diet modulates the imputed functions of gut microbiome in growing-finishing pigs. Sci Rep 10:1–12
doi: 10.1038/s41598-020-66364-4
Wang K, Mao H, Wang Z, Tian Y (2018) Succession of organics metabolic function of bacterial community in swine manure composting. J Hazard Mater 360:471–480
pubmed: 30144766 doi: 10.1016/j.jhazmat.2018.08.032
Yeh HY, Line JE, Hinton A (2019) Community-level physiological profiling for microbial community function in broiler ceca. Curr Microbiol 76:173–177
pubmed: 30488164 doi: 10.1007/s00284-018-1602-1

Auteurs

A Checcucci (A)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

D Luise (D)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

M Modesto (M)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

F Correa (F)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

P Bosi (P)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

P Mattarelli (P)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy.

Paolo Trevisi (P)

Department of Agricultural and Food Sciences, University of Bologna, 40127, Bologna, Italy. paolo.trevisi@unibo.it.

Articles similaires

Robotic Surgical Procedures Animals Humans Telemedicine Models, Animal

Odour generalisation and detection dog training.

Lyn Caldicott, Thomas W Pike, Helen E Zulch et al.
1.00
Animals Odorants Dogs Generalization, Psychological Smell
Animals TOR Serine-Threonine Kinases Colorectal Neoplasms Colitis Mice
Animals Tail Swine Behavior, Animal Animal Husbandry

Classifications MeSH