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Luna N, Muñoz M, Castillo-Castañeda A, Hernandez C, Urbano P, Shaban M, Paniz-Mondolfi A, Ramírez JD. Characterizing the blood microbiota of omnivorous and frugivorous bats (Chiroptera: Phyllostomidae) in Casanare, eastern Colombia. PeerJ 2023; 11:e15169. [PMID: 37431467 PMCID: PMC10329821 DOI: 10.7717/peerj.15169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2022] [Accepted: 03/13/2023] [Indexed: 07/12/2023] Open
Abstract
Bats are known reservoirs of seemingly-innocuous pathogenic microorganisms (including viruses, bacteria, fungi, and protozoa), which are associated with triggering disease in other zoonotic groups. The taxonomic diversity of the bats' microbiome is likely associated with species-specific phenotypic, metabolic, and immunogenic capacities. To date, few studies have described the diversity of bat blood microbial communities. Then, this study used amplicon-based next generation sequencing of the V4 hypervariable region of the 16S-rRNA gene in blood samples from omnivorous (n = 16) and frugivorous (n = 9) bats from the department of Casanare in eastern Colombia. We found the blood microbiota in bats to be composed of, among others, Bartonella and Mycoplasma bacterial genera which are associated with various disease phenotypes in other mammals. Furthermore, our results suggest that the bats' dietary habits might determine the composition and the persistence of some pathogens over others in their bloodstream. This study is among the first to describe the blood microbiota in bats, to reflect on co-infection rates of multiple pathogens in the same individual, and to consider the influence of diet as a factor affecting the animal's endogenous microbial community.
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Affiliation(s)
- Nicolas Luna
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Marina Muñoz
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Adriana Castillo-Castañeda
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Carolina Hernandez
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
| | - Plutarco Urbano
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
- Universidad Internacional del Tropico Americano (Unitropico), Yopal, Colombia
| | - Maryia Shaban
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
- Incubadora Venezolana de la Ciencia, Caracas, Venezuela
| | - Alberto Paniz-Mondolfi
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
- Incubadora Venezolana de la Ciencia, Caracas, Venezuela
| | - Juan David Ramírez
- Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR), Facultad de Ciencias Naturales, Universidad del Rosario, Bogotá, Colombia
- Molecular Microbiology Laboratory, Department of Pathology, Molecular and Cell-Based Medicine, Icahn School of Medicine at Mount Sinai, New York, United States of America
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Webb EM, Holman DB, Schmidt KN, Crouse MS, Dahlen CR, Cushman RA, Snider AP, McCarthy KL, Amat S. A Longitudinal Characterization of the Seminal Microbiota and Antibiotic Resistance in Yearling Beef Bulls Subjected to Different Rates of Gain. Microbiol Spectr 2023; 11:e0518022. [PMID: 36916922 PMCID: PMC10100376 DOI: 10.1128/spectrum.05180-22] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Accepted: 02/16/2023] [Indexed: 03/16/2023] Open
Abstract
In this study, we evaluated the seminal and fecal microbiota in yearling beef bulls fed a common diet to achieve moderate (1.13 kg/day) or high (1.80 kg/day) rates of weight gain. Semen samples were collected on days 0 and 112 of dietary intervention (n = 19/group) as well as postbreeding (n = 6/group) using electroejaculation, and the microbiota was assessed using 16S rRNA gene sequencing, quantitative PCR (qPCR), and culturing. The fecal microbiota was also evaluated, and its similarity with seminal microbiota was assessed. A subset of seminal bacterial isolates (n = 33) was screened for resistance against 28 antibiotics. A complex and dynamic microbiota was detected in bovine semen, and the community structure was affected by sampling time (R2 = 0.16, P < 0.001). Microbial richness increased significantly from day 0 to day 112, and diversity increased after breeding (P > 0.05). Seminal microbiota remained unaffected by the differential rates of gain, and its overall composition was distinct from fecal microbiota, with only 6% of the taxa shared between them. A total of 364 isolates from 49 different genera were recovered under aerobic and anaerobic culturing. Among these seminal isolates were pathogenic species and those resistant to several antibiotics. Overall, our results suggest that bovine semen harbors a rich and complex microbiota which changes over time and during the breeding season but appears to be resilient to differential gains achieved via a common diet. Seminal microbiota is distinct from the fecal microbiota and harbors potentially pathogenic and antibiotic-resistant bacterial species. IMPORTANCE Increasing evidence from human and other animal species supports the existence of a commensal microbiota in semen and that this seminal microbiota may influence not only sperm quality and fertility but also female reproduction. Seminal microbiota in bulls and its evolution and factors shaping this community, however, remain largely underexplored. In this study, we characterized the seminal microbiota of yearling beef bulls and its response to the bull age, different weight gains, and mating activity. We compared bacterial composition between seminal and fecal microbiota and evaluated the diversity of culturable seminal bacteria and their antimicrobial resistance. Our results obtained from sequencing, culturing, and antibiotic susceptibility testing provide novel information on the taxonomic composition, evolution, and factors shaping the seminal microbiota of yearling beef bulls. This information will serve as an important basis for further understanding of the seminal microbiome and its involvement in reproductive health and fertility in cattle.
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Affiliation(s)
- Emily M. Webb
- Department of Microbiological Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Devin B. Holman
- Lacombe Research and Development Centre, Agriculture and Agri-Food Canada, Lacombe, Alberta, Canada
| | - Kaycie N. Schmidt
- Department of Microbiological Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Matthew S. Crouse
- USDA, Agriculture Research Service, U.S. Meat Animal Research Center, Clay Center, Nebraska, USA
| | - Carl R. Dahlen
- Department of Animal Sciences, North Dakota State University, Fargo, North Dakota, USA
| | - Robert A. Cushman
- USDA, Agriculture Research Service, U.S. Meat Animal Research Center, Clay Center, Nebraska, USA
| | - Alexandria P. Snider
- USDA, Agriculture Research Service, U.S. Meat Animal Research Center, Clay Center, Nebraska, USA
| | - Kacie L. McCarthy
- Department of Animal Sciences, Institute of Agriculture and Natural Resources, University of Nebraska-Lincoln, Lincoln, Nebraska, USA
| | - Samat Amat
- Department of Microbiological Sciences, North Dakota State University, Fargo, North Dakota, USA
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Pesapane R, Chaves A, Foley J, Javeed N, Barnum S, Greenwald K, Dodd E, Fontaine C, Duignan P, Murray M, Miller M. Nasopulmonary mites (Acari: Halarachnidae) as potential vectors of bacterial pathogens, including Streptococcus phocae, in marine mammals. PLoS One 2022; 17:e0270009. [PMID: 35709209 PMCID: PMC9202935 DOI: 10.1371/journal.pone.0270009] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2022] [Accepted: 06/01/2022] [Indexed: 01/16/2023] Open
Abstract
Nasopulmonary mites (NPMs) of the family Halarachnidae are obligate endoparasites that colonize the respiratory tracts of mammals. NPMs damage surface epithelium resulting in mucosal irritation, respiratory illness, and secondary infection, yet the role of NPMs in facilitating pathogen invasion or dissemination between hosts remains unclear. Using 16S rRNA massively parallel amplicon sequencing of six hypervariable regions (or "16S profiling"), we characterized the bacterial community of NPMs from 4 southern sea otters (Enhydra lutris nereis). This data was paired with detection of a priority pathogen, Streptococcus phocae, from NPMs infesting 16 southern sea otters and 9 California sea lions (Zalophus californianus) using nested conventional polymerase chain reaction (nPCR). The bacteriome of assessed NPMs was dominated by Mycoplasmataceae and Vibrionaceae, but at least 16 organisms with pathogenic potential were detected as well. Importantly, S. phocae was detected in 37% of NPM by nPCR and was also detected by 16S profiling. Detection of multiple organisms with pathogenic potential in or on NPMs suggests they may act as mechanical vectors of bacterial infection for marine mammals.
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Affiliation(s)
- Risa Pesapane
- Department of Veterinary Preventive Medicine, College of Veterinary Medicine, The Ohio State University, Columbus, Ohio, United States of America
- School of Environment and Natural Resources, College of Food, Agricultural, and Environmental Science, The Ohio State University, Columbus, Ohio, United States of America
| | - Andrea Chaves
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California Davis, Davis, California, United States of America
| | - Janet Foley
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California Davis, Davis, California, United States of America
| | - Nadia Javeed
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California Davis, Davis, California, United States of America
| | - Samantha Barnum
- Department of Medicine and Epidemiology, School of Veterinary Medicine, University of California Davis, Davis, California, United States of America
| | - Katherine Greenwald
- California Department of Fish and Wildlife, Marine Wildlife Veterinary Care and Research Center, Santa Cruz, California, United States of America
| | - Erin Dodd
- California Department of Fish and Wildlife, Marine Wildlife Veterinary Care and Research Center, Santa Cruz, California, United States of America
| | - Christine Fontaine
- The Marine Mammal Center, Sausalito, California, United States of America
| | - Padraig Duignan
- The Marine Mammal Center, Sausalito, California, United States of America
| | - Michael Murray
- Monterey Bay Aquarium, Monterey, California, United States of America
| | - Melissa Miller
- California Department of Fish and Wildlife, Marine Wildlife Veterinary Care and Research Center, Santa Cruz, California, United States of America
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Komatsu T, Yoshida E, Shigenaga A, Yasuie N, Uchiyama S, Takamura Y, Sugie K, Kimura K, Haritani M, Shibahara T. Fatal suppurative meningoencephalitis caused by Klebsiella pneumoniae in two calves. J Vet Med Sci 2021; 83:1113-1119. [PMID: 34024871 PMCID: PMC8349807 DOI: 10.1292/jvms.21-0166] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
Abstract
One calf died (No. 1) and another was euthanized following astasia (No. 2). Histopathological examination revealed suppurative meningoencephalitis in these
calves. Klebsiella pneumoniae antigens were detected in lesions. Thymocytes were decreased in the thymus cortex in both cases. 16S rRNA gene
sequencing of the No. 1 isolate and bacterial extracts from formalin fixed paraffin embedded sections of No. 2 revealed that both samples were K.
pneumoniae. The No. 1 isolate showed multidrug resistance against penicillin antibiotics, fosfomycin, streptomycin, macrolide antibiotics,
tetracycline antibiotics, and clindamycin. Immunosuppression is a significant septicemic K. pneumoniae infection risk factor. Our study
provides new aspects regarding K. pneumoniae infections in cattle, bacterial meningoencephalitis differentiation, and K.
pneumoniae and bacterial meningoencephalitis treatments.
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Affiliation(s)
- Tetsuya Komatsu
- Aichi Prefectural Chuo Livestock Hygiene Service Center, 1-306 Jizono, Miaicho, Okazaki, Aichi 444-0805, Japan
| | - Erina Yoshida
- Miyazaki Prefectural Livestock Hygiene Service Center, 3151-1 Shimonaka, Sadowaracho, Miyazaki, Miyazaki 880-0212, Japan
| | - Ayumi Shigenaga
- Miyazaki Prefectural Livestock Hygiene Service Center, 3151-1 Shimonaka, Sadowaracho, Miyazaki, Miyazaki 880-0212, Japan
| | - Nozomi Yasuie
- Hinode Animal Clinic, 4-1 Owaki, Heijimacho, Yatomi, Aichi 498-0031, Japan
| | - Shintaro Uchiyama
- Aichi Prefectural Tobu Livestock Hygiene Service Center, 51-1 Konami, Nishimiyukicho, Toyohashi, Aichi 441-8113, Japan
| | - Yuji Takamura
- Aichi Prefectural Chuo Livestock Hygiene Service Center, 1-306 Jizono, Miaicho, Okazaki, Aichi 444-0805, Japan
| | - Kennosuke Sugie
- Aichi Prefectural Chuo Livestock Hygiene Service Center, 1-306 Jizono, Miaicho, Okazaki, Aichi 444-0805, Japan
| | - Kumiko Kimura
- Division of Pathology and Pathophysiology, National Institute of Animal Health, National Agriculture and Food Research Organization (NARO), 3-1-5 Kannondai, Tsukuba, Ibaraki 305-0856, Japan
| | - Makoto Haritani
- Department of Veterinary Medical Science, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo 113-8657, Japan.,School of Veterinary Nursing and Technology, Faculty of Veterinary Science, Nippon Veterinary and Life Science University, 1-7-1 Kyonancho, Musashino, Tokyo 180-8602, Japan
| | - Tomoyuki Shibahara
- Division of Pathology and Pathophysiology, National Institute of Animal Health, National Agriculture and Food Research Organization (NARO), 3-1-5 Kannondai, Tsukuba, Ibaraki 305-0856, Japan.,Department of Veterinary Science, Graduate School of Life and Environmental Sciences, Osaka Prefecture University, 1-58 Rinku-Oraikita, Izumisano, Osaka 598-8531, Japan
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Li F, Zhao W, Hong Q, Shao Q, Zhu J, Yang S. Mannheimia bovis sp. nov., Isolated from a Dead Cow with Hemorrhagic Pneumonia. Curr Microbiol 2021; 78:1692-1698. [PMID: 33638000 DOI: 10.1007/s00284-021-02384-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Accepted: 02/05/2021] [Indexed: 10/22/2022]
Abstract
Strain ZY190616T was isolated from lung of a dead cow with hemorrhagic pneumonia in Yunnan Province, China. The strain was Gram-stain-negative, facultatively anaerobic bacterium. Phylogenetic analysis based on 16S rRNA gene sequence indicated that the strain was closely related to species of the genus Mannheimia and formed an independent clade with M.varigena CCUG 38462 T (97.0% similarity). Phylogenetic analysis based on recN gene indicated that the strain formed a clade with M.caviae CCUG 59995 T (87.8% similarity). Phylogenetic analysis based on rpoB gene indicated that the strain formed a clade with M.varigena CCUG 38462 T (94.7% similarity). The genomic OrthoANI values between strain ZY190616T and M. ovis, M.haemolytica and M.granulomatis were 84.5%, 82.7% and 81.9%, respectively. The genomic G + C content was 39.8 mol%. The predominant fatty acids (> 5%) of the strain were C16:0, C14:0, C18:1ω7c, summed feature 3 (C16:1 ω7c and/ or C16:1ω6c) and summed feature 2 (C14:0 3OH/ C16:1 Iso). The major polar lipids were phosphatidylglycerol (PG), phosphatidylethanolamine (PE), monophosphatidylglycerol (MGDG), triacylglycerol (TAG) and diphosphatidylglycerol (DLCL). The sole respiratory quinone was CoQ-7. Based on evidence from the taxonomic study, strain ZY190616T represents a novel species of the genus Mannheimia, for which the name Mannheimia bovis sp. nov. is proposed. The type strain is ZY190616T (= CCTCC AB 2020168 T = KCTC 25018 T).
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Affiliation(s)
- Fuxiang Li
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China
| | - Wenhua Zhao
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China
| | - Qionghua Hong
- Yunnan Provincial Meat Caprine Engineering Research Center, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China
| | - Qingyong Shao
- Yunnan Provincial Meat Caprine Engineering Research Center, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China
| | - Jianbo Zhu
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China
| | - Shibiao Yang
- Yunnan Tropical and Subtropical Animal Virus Diseases Laboratory, Yunnan Animal Science and Veterinary Institute, Kunming, 650224, P. R. China.
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Mannheimia ovis sp. nov., Isolated from Dead Sheep with Hemorrhagic Pneumonia. Curr Microbiol 2020; 77:3504-3511. [PMID: 32951094 DOI: 10.1007/s00284-020-02209-7] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2020] [Accepted: 09/09/2020] [Indexed: 10/23/2022]
Abstract
Two Gram-stain-negative, facultatively anaerobic bacteria, designated ZY170218T and ZY180512, were isolated from lungs of dead sheep with hemorrhagic pneumonia in Yunnan Province, China and their taxonomic positions were studied by a polyphasic approach. The two isolates grew optimally at 37 °C, pH 9.0 and 1.0% NaCl (w/v), and showed identical 16S rRNA, recN and rpoB gene sequences. Phylogenetic analysis based on 16S rRNA gene sequence showed that the two strains fell within the cluster of species in the genus Mannheimia and formed a separated lineage with comparatively low similarity to the closest related species M. granulomatis (96.5%). Phylogenetic analysis based on rpoB gene indicated that the strains formed a monophyletic evolutionary lineage, with low sequence similarity ≤ 89.0% to the species of the genus Mannheimia. The genomic OrthoANI values between strain ZY170218T and M. granulomatis and M. haemolytica were 80.4% and 83.1%, respectively. The genomic G + C content of strain ZY170218T was 39.1 mol%. The predominant fatty acids (> 5%) of the two strains were C16:0, C14:0, C18:1ω7c, summed feature 3 (C16:1 ω7c and/ or C16:1ω6c) and summed feature 2 (C14:0 3OH/ C16:1 Iso). The major polar lipids of strain ZY170218T were phosphatidylglycerol, phosphatidylcholine, monogalactosyldiacylglycerol, bis(monoacylglycero)phosphate and diacylglycerols. The sole respiratory quinone of the two strains was CoQ-7. On the basis of phylogenetic, phenotypic and chemotaxonomic features, strain ZY170218T and ZY180512 clearly represents a novel species of the genus Mannheimia, for which the name Mannheimia ovis sp. nov. is proposed. The type strain is ZY170218T (= CGMCC 1.13620 T = KCTC 15731 T).
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