Comparative analysis of gut microbiota of Chinese Kunming dog, German Shepherd, and Belgian Malinois

다국어 초록 (Multilingual Abstract)

Importance: The composition of the gut microbiota is essential for a dog’s health and its adaptation to the environment. Different bacteria can produce the same essential metabolites beneficial to health owing to bacterial functional redundancy in microbial communities.
Objective: This study examined the gut bacterial communities of dogs from different breeds, all kept under identical domestication conditions.
Methods: Noninvasive sampling and 16S rRNA high-throughput sequencing were used to compare the composition and function of the gut microbiota of three dog breeds: the Chinese Kunming dog (CKD), German Shepherd dog (GSD), and Belgian Malinois dog (BMD).
Results: The gut microbiota of the three dog breeds consisted of 257 species across 146 genera, 60 families, 35 orders, 15 classes, and 10 phyla. The dominant bacterial phyla across the three breeds were Firmicutes (57.44%), Fusobacteriota (28.86%), and Bacteroidota (7.63%), while the dominant bacterial genera across the three breeds were Peptostreptococcus (21.08%), Fusobacterium (18.50%), Lactobacillus (12.37%), and Cetobacter (10.29%). Further analysis revealed significant differences in the intestinal flora of the three breeds at the phylum and genus levels. The intestinal flora of BMD was significantly richer than that of CKD and GSD. The functional prediction and Kyoto Encyclopedia of Genes and Genomes analysis showed that the primary functions of the gut microbiota in these breeds were similar, with significant enrichment in various metabolic pathways, including carbohydrate and amino acid metabolism, secondary metabolite biosynthesis, and microbial metabolism in different environments. The intestinal flora of these breeds also played a crucial role in genetic information processing, including transcription, translation, replication, and material transport.
Conclusions and Relevance: These results provide novel insights into the intestinal flora of intervention dogs and suggest novel methods to improve their health status, which help increase microbial diversity and normalize metabolite production in diseased dogs.

참고문헌 (Reference)

• 1 Pilla R, "The role of the canine gut microbiome and metabolome in health and gastrointestinal disease" 6 : 498-, 2020
• 2 Hart LA, "The role of police dogs as companions and working partners" 86 (86): 190-202, 2000
• 3 Clayton JB, "The gut microbiome of nonhuman primates : lessons in ecology and evolution" 80 (80): e22867-, 2018
• 4 Malukiewicz J, "The gut microbiome of exudivorous marmosets in the wild and captivity" 12 (12): 5049-5062, 2022
• 5 Pilla R, "The gut microbiome of dogs and cats, and the influence of diet" 51 (51): 605-621, 2021
• 6 Coyte KZ, "The ecology of the microbiome : Networks, competition, and stability" 350 (350): 663-666, 2015
• 7 Xue Z, "The bamboo-eating giant panda harbors a carnivore-like gut microbiota, with excessive seasonal variations" 6 (6): e00022-15-, 2015
• 8 Stackebrandt E, "Taxonomic note : a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology" 44 (44): 846-849, 1994
• 9 Coelho LP, "Similarity of the dog and human gut microbiomes in gene content and response to diet" 6 (6): 72-, 2018
• 10 Xie H, "Shotgun metagenomics of 250 adult twins reveals genetic and environmental impacts on the gut microbiome" 3 (3): 572-584, 2016
• 11 Wu Q, "Seasonal variation in nutrient utilization shapes gut microbiome structure and function in wild giant pandas" 284 (284): 1471-1854, 2017
• 12 Maynard CL, "Reciprocal interactions of the intestinal microbiota and immune system" 489 (489): 231-241, 2012
• 13 Sandri M, "Raw meat based diet influences faecal microbiome and end products of fermentation in healthy dogs" 13 (13): 65-77, 2017
• 14 Abellan-Schneyder I, "Primer, Pipelines, Parameters : Issues in 16S rRNA gene sequencing" 6 (6): e01202-e01220, 2021
• 15 Zhang H, "Phylogenetic analysis of 16S rRNA gene sequences reveals distal gut bacterial diversity in wild wolves(Canis lupus)" 37 (37): 4013-4022, 2010
• 16 Baumgart DC, "Newer biologic and small-molecule therapies for inflammatory bowel disease" 385 (385): 1302-1315, 2021
• 17 Jackrel SL, "Microbiomes reduce their host’s sensitivity to interspecific interactions" 11 (11): e02657-e02669, 2020
• 18 Lynch JB, "Microbiomes as sources of emergent host phenotypes" 365 (365): 1405-1409, 2019
• 19 Schloss PD, "Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness" 71 (71): 1501-1506, 2005
• 20 Mallott EK, "Influence of fruit and invertebrate consumption on the gut microbiota of wild white-faced capuchins(Cebus capucinus)" 165 (165): 576-588, 2018
• 21 Kondreddy Eswar Reddy ; 김혜란 ; 정진영 ; 소경민 ; 이슬 ; 지상윤 ; 김민지 ; 이현정 ; 이성대 ; 김기현 ; 김민석, "Impact of breed on the fecal microbiome of dogs under the same dietary condition" 29 (29): 1947-1956, 2019
• 22 Hanski E, "Gut microbiota of the critically endangered Saiga antelope across two wild populations in a year without mass mortality" 13 (13): 17236-17248, 2023
• 23 Qin W, "Gut microbiota enabled goitered gazelle(Gazella subgutturosa)to adapt to seasonal changes" 52 (52): 1637-1646, 2020
• 24 Zhang BL, "Gut microbiota and their possible correlation to enteritis in captive Aix galericulata" 56 (56): 908-917, 2021
• 25 Konstantinidis KT, "Genomic insights that advance the species definition for prokaryotes" 102 (102): 2567-2572, 2005
• 26 Moya A, "Functional redundancy-induced stability of gut microbiota subjected to disturbance" 24 (24): 402-413, 2016
• 27 Hasan N, "Factors affecting the composition of the gut microbiota, and its modulation" 7 (7): e7502-, 2019
• 28 Younes H, "Effects of two fermentable carbohydrates(inulin and resistant starch)and their combination on calcium and magnesium balance in rats" 86 (86): 479-485, 2001
• 29 Pilla R, "Effects of metronidazole on the fecal microbiome and metabolome in healthy dogs" 34 (34): 1853-1866, 2020
• 30 Ley RE, "Ecological and evolutionary forces shaping microbial diversity in the human intestine" 124 (124): 837-848, 2006
• 31 Segata N, "Computational meta’omics for microbial community studies" 9 (9): 666-, 2013
• 32 Söder J, "Composition and short-term stability of gut microbiota in lean and spontaneously overweight healthy Labrador retriever dogs" 64 (64): 8-, 2022
• 33 Shinohara A, "Comparison of the gut microbiotas of laboratory and wild Asian house shrews(Suncus murinus)based on cloned 16S rRNA sequences" 68 (68): 531-539, 2019
• 34 Zhang ZM, "Comparison of intestinal microbiota of golden-headed lion tamarins, golden-handed tamarins and cotton-headed tamarins under the same captive environment" 43 (43): 580-592, 2023
• 35 You I, "Comparison of gut microbiota of 96 healthy dogs by individual traits : breed, age, and body condition score" 11 (11): 2432-, 2021
• 36 Zhu L, "Comparative study of gut microbiota in different breeds of working dogs" 13 (13): 1-14, 2022
• 37 Wang X, "Comparative analyses of the gut microbiome of two fox species, the red fox(Vulpes vulpes)and corsac fox(Vulpes corsac), that occupy different ecological niches" 83 (83): 753-765, 2022
• 38 Sun G, "Comparative analyses of fecal microbiota in European mouflon(Ovis orientalis musimon)and blue sheep(Pseudois nayaur)living at low or high altitudes" 10 (10): 1735-1748, 2019
• 39 Morelli G, "Characterization of intestinal microbiota in normal weight and overweight Border Collie and Labrador Retriever dogs" 12 (12): 9199-9213, 2022
• 40 Rooney TA, "Characterization of faecal and caecal microbiota of free-ranging black-tailed prairie dogs(Cynomys ludovicianus)using high-throughput sequencing of the V4 region of the 16S rRNA gene" 9 (9): coab042-, 2021
• 41 Lyu T, "Changes in feeding habits promoted the differentiation of the composition and function of gut microbiotas between domestic dogs(Canis lupus familiaris)and gray wolves(Canis lupus)" 8 (8): 123-131, 2018
• 42 Malukiewicz J, "Bifidobacteria define gut microbiome profiles of golden lion tamarin (Leontopithecus rosalia) and marmoset (Callithrix sp.) metagenomic shotgun pools" 13 (13): 15679-15691, 2023
• 43 Fei N, "An opportunistic pathogen isolated from the gut of an obese human causes obesity in germfree mice" 7 (7): 880-884, 2013
• 44 Li J, "An integrated catalog of reference genes in the human gut microbiome" 32 (32): 834-841, 2014
• 45 Fernández-Pinteño A, "Age-associated changes in intestinal health biomarkers in dogs" 10 (10): 1213287-, 2023
• 46 Greene LK, "A role for gut microbiota in host niche differentiation" 14 (14): 1675-1687, 2020
• 47 Herstad KM, "A diet change from dry food to beef induces reversible changes on the faecal microbiota in healthy, adult client-owned dogs" 13 (13): 147-158, 2017