Metagenomic-Based Study of the Phylogenetic and Functional Gene Diversity in Galápagos Land and Marine Iguanas

Handle URI:
http://hdl.handle.net/10754/575628
Title:
Metagenomic-Based Study of the Phylogenetic and Functional Gene Diversity in Galápagos Land and Marine Iguanas
Authors:
Hong, Pei-Ying ( 0000-0002-4474-6600 ) ; Mao, Yuejian; Ortiz-Kofoed, Shannon; Shah, Rushabh S.; Cann, Isaac Ko O; Mackie, Roderick Ian
Abstract:
In this study, a metagenome-based analysis of the fecal samples from the macrophytic algae-consuming marine iguana (MI; Amblyrhynchus cristatus) and terrestrial biomass-consuming land iguanas (LI; Conolophus spp.) was conducted. Phylogenetic affiliations of the fecal microbiome were more similar between both iguanas than to other mammalian herbivorous hosts. However, functional gene diversities in both MI and LI iguana hosts differed in relation to the diet, where the MI fecal microbiota had a functional diversity that clustered apart from the other terrestrial-biomass consuming reptilian and mammalian hosts. A further examination of the carbohydrate-degrading genes revealed that several of the prevalent glycosyl hydrolases (GH), glycosyl transferases (GT), carbohydrate binding modules (CBM), and carbohydrate esterases (CE) gene classes were conserved among all examined herbivorous hosts, reiterating the important roles these genes play in the breakdown and metabolism of herbivorous diets. Genes encoding some classes of carbohydrate-degrading families, including GH2, GH13, GT2, GT4, CBM50, CBM48, CE4, and CE11, as well as genes associated with sulfur metabolism and dehalogenation, were highly enriched or unique to the MI. In contrast, gene sequences that relate to archaeal methanogenesis were detected only in LI fecal microbiome, and genes coding for GH13, GH66, GT2, GT4, CBM50, CBM13, CE4, and CE8 carbohydrate active enzymes were highly abundant in the LI. Bacterial populations were enriched on various carbohydrates substrates (e.g., glucose, arabinose, xylose). The majority of the enriched bacterial populations belong to genera Clostridium spp. and Enterococcus spp. that likely accounted for the high prevalence of GH13 and GH2, as well as the GT families (e.g., GT2, GT4, GT28, GT35, and GT51) that were ubiquitously present in the fecal microbiota of all herbivorous hosts.
KAUST Department:
Environmental Science and Engineering Program; Water Desalination and Reuse Research Center (WDRC); Biological and Environmental Sciences and Engineering (BESE) Division; Environmental Microbial Safety and Biotechnology Lab
Publisher:
Springer Nature
Journal:
Microbial Ecology
Issue Date:
19-Dec-2014
DOI:
10.1007/s00248-014-0547-6
Type:
Article
ISSN:
00953628
Appears in Collections:
Articles; Environmental Science and Engineering Program; Water Desalination and Reuse Research Center (WDRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorHong, Pei-Yingen
dc.contributor.authorMao, Yuejianen
dc.contributor.authorOrtiz-Kofoed, Shannonen
dc.contributor.authorShah, Rushabh S.en
dc.contributor.authorCann, Isaac Ko Oen
dc.contributor.authorMackie, Roderick Ianen
dc.date.accessioned2015-08-24T08:34:32Zen
dc.date.available2015-08-24T08:34:32Zen
dc.date.issued2014-12-19en
dc.identifier.issn00953628en
dc.identifier.doi10.1007/s00248-014-0547-6en
dc.identifier.urihttp://hdl.handle.net/10754/575628en
dc.description.abstractIn this study, a metagenome-based analysis of the fecal samples from the macrophytic algae-consuming marine iguana (MI; Amblyrhynchus cristatus) and terrestrial biomass-consuming land iguanas (LI; Conolophus spp.) was conducted. Phylogenetic affiliations of the fecal microbiome were more similar between both iguanas than to other mammalian herbivorous hosts. However, functional gene diversities in both MI and LI iguana hosts differed in relation to the diet, where the MI fecal microbiota had a functional diversity that clustered apart from the other terrestrial-biomass consuming reptilian and mammalian hosts. A further examination of the carbohydrate-degrading genes revealed that several of the prevalent glycosyl hydrolases (GH), glycosyl transferases (GT), carbohydrate binding modules (CBM), and carbohydrate esterases (CE) gene classes were conserved among all examined herbivorous hosts, reiterating the important roles these genes play in the breakdown and metabolism of herbivorous diets. Genes encoding some classes of carbohydrate-degrading families, including GH2, GH13, GT2, GT4, CBM50, CBM48, CE4, and CE11, as well as genes associated with sulfur metabolism and dehalogenation, were highly enriched or unique to the MI. In contrast, gene sequences that relate to archaeal methanogenesis were detected only in LI fecal microbiome, and genes coding for GH13, GH66, GT2, GT4, CBM50, CBM13, CE4, and CE8 carbohydrate active enzymes were highly abundant in the LI. Bacterial populations were enriched on various carbohydrates substrates (e.g., glucose, arabinose, xylose). The majority of the enriched bacterial populations belong to genera Clostridium spp. and Enterococcus spp. that likely accounted for the high prevalence of GH13 and GH2, as well as the GT families (e.g., GT2, GT4, GT28, GT35, and GT51) that were ubiquitously present in the fecal microbiota of all herbivorous hosts.en
dc.publisherSpringer Natureen
dc.subjectCarbohydrateen
dc.subjectDegrading enzymesen
dc.subjectFecal microbiomeen
dc.subjectGalápagos iguanasen
dc.subjectHerbivoryen
dc.subjectShotgun metagenomicsen
dc.titleMetagenomic-Based Study of the Phylogenetic and Functional Gene Diversity in Galápagos Land and Marine Iguanasen
dc.typeArticleen
dc.contributor.departmentEnvironmental Science and Engineering Programen
dc.contributor.departmentWater Desalination and Reuse Research Center (WDRC)en
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentEnvironmental Microbial Safety and Biotechnology Laben
dc.identifier.journalMicrobial Ecologyen
dc.contributor.institutionDepartment of Animal Sciences, University of Illinois at Urbana ChampaignUrbana, IL, United Statesen
dc.contributor.institutionInstitute of Genomic Biology, University of Illinois at Urbana ChampaignUrbana, IL, United Statesen
dc.contributor.institutionSchool of Veterinary Medicine, University of Illinois at Urbana ChampaignUrbana, IL, United Statesen
dc.contributor.institutionDepartment of Microbiology, University of Illinois at Urbana ChampaignUrbana, IL, United Statesen
dc.contributor.institutionGenomics and Ecology of Microbes, DuPont Nutrition and HealthShanghai, Chinaen
kaust.authorHong, Pei-Yingen
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