Meta-Analysis of Bovine Digital Dermatitis Microbiota Reveals Distinct Microbial Community Structures Associated With Lesions

被引:19
作者
Ben Caddey [1 ]
De Buck, Jeroen [1 ]
机构
[1] Univ Calgary, Fac Vet Med, Dept Prod Anim Hlth, Calgary, AB, Canada
关键词
cattle; digital dermatitis; microbiota; skin microbiome; Treponema; meta-analysis; COW-LEVEL PREVALENCE; DAIRY-CATTLE; GUGGENHEIMELLA-BOVIS; CALIFORNIA DAIRY; HERD-LEVEL; PERFORMANCE; LAMENESS;
D O I
10.3389/fcimb.2021.685861
中图分类号
R392 [医学免疫学]; Q939.91 [免疫学];
学科分类号
100102 ;
摘要
Bovine digital dermatitis (DD) is a significant cause of infectious lameness and economic losses in cattle production across the world. There is a lack of a consensus across different 16S metagenomic studies on DD-associated bacteria that may be potential pathogens of the disease. The goal of this meta-analysis was to identify a consistent group of DD-associated bacteria in individual DD lesions across studies, regardless of experimental design choices including sample collection and preparation, hypervariable region sequenced, and sequencing platform. A total of 6 studies were included in this meta-analysis. Raw sequences and metadata were identified on the NCBI sequence read archive and European nucleotide archive. Bacterial community structures were investigated between normal skin and DD skin samples. Random forest models were generated to classify DD status based on microbial composition, and to identify taxa that best differentiate DD status. Among all samples, members of Treponema, Mycoplasma, Porphyromonas, and Fusobacterium were consistently identified in the majority of DD lesions, and were the best genera at differentiating DD lesions from normal skin. Individual study and 16S hypervariable region sequenced had significant influence on final DD lesion microbial composition (P < 0.05). These findings indicate that members of Treponema, Mycoplasma, Porphyromonas, and/or Fusobacterium may have significant roles in DD pathogenesis, and should be studied further in respect to elucidating DD etiopathogenic mechanisms and developing more effective treatment and mitigation strategies.
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页数:12
相关论文
共 50 条
[1]   Treponema spp. Isolated from Bovine Digital Dermatitis Display Different Pathogenicity in a Murine Abscess Model [J].
Arrazuria, Rakel ;
Knight, Cameron G. ;
Lahiri, Priyoshi ;
Cobo, Eduardo R. ;
Barkema, Herman W. ;
De Buck, Jeroen .
MICROORGANISMS, 2020, 8 (10) :1-13
[2]   Keystone taxa as drivers of microbiome structure and functioning [J].
Banerjee, Samiran ;
Schlaeppi, Klaus ;
van der Heijden, Marcel G. A. .
NATURE REVIEWS MICROBIOLOGY, 2018, 16 (09) :567-576
[3]   Associations between digital dermatitis lesion grades in dairy cattle and the quantities of four Treponema species [J].
Beninger, Caroline ;
Naqvi, Syed Ali ;
Naushad, Sohail ;
Orsel, Karin ;
Luby, Chris ;
Derakhshani, Hooman ;
Khafipour, Ehsan ;
De Buck, Jeroen .
VETERINARY RESEARCH, 2018, 49
[4]   Long-term observations on the dynamics of bovine digital dermatitis lesions on a California dairy after topical treatment with lincomycin HCl [J].
Berry, Steven L. ;
Read, Deryck H. ;
Famula, Thomas R. ;
Mongini, Andrea ;
Doepfer, Doerte .
VETERINARY JOURNAL, 2012, 193 (03) :654-658
[5]   Cow- and herd-level factors associated with lameness in small-scale grazing dairy herds in Brazil [J].
Bran, Jose A. ;
Daros, Rolnei R. ;
von Keyserlingk, Marina A. G. ;
LeBlanc, Stephen J. ;
Hotzel, Maria Jose .
PREVENTIVE VETERINARY MEDICINE, 2018, 151 :79-86
[6]   Exact sequence variants should replace operational taxonomic units in marker-gene data analysis [J].
Callahan, Benjamin J. ;
McMurdie, Paul J. ;
Holmes, Susan P. .
ISME JOURNAL, 2017, 11 (12) :2639-2643
[7]  
Callahan BJ, 2016, NAT METHODS, V13, P581, DOI [10.1038/NMETH.3869, 10.1038/nmeth.3869]
[8]   Ovine pedomics: the first study of the ovine foot 16S rRNA-based microbiome [J].
Calvo-Bado, Leo A. ;
Oakley, Brian B. ;
Dowd, Scot E. ;
Green, Laura E. ;
Medley, Graham F. ;
Ul-Hassan, Atiya ;
Bateman, Vicky ;
Gaze, William ;
Witcomb, Luci ;
Grogono-Thomas, Rose ;
Kaler, Jasmeet ;
Russell, Claire L. ;
Wellington, Elizabeth M. H. .
ISME JOURNAL, 2011, 5 (09) :1426-1437
[9]  
Cheli R., 1974, Proceedings of the 8th International Conference Diseases of Cattle, Milan, Italy, P208, DOI DOI 10.21423/BOVINE-VOL1974NO9P132-142
[10]  
Davis-Unger J, 2017, TRANSL ANIM SCI, V1, P467, DOI 10.2527/tas2017.0052