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  1. Dietary content and environmental factors can shape the gut microbiota, and consequently, the way the gut microbiota metabolizes fats, carbohydrates, and proteins, affecting overall health of the host. We eval...

    Authors: Lina María Martínez-López, Amy Pepper, Rachel Pilla, Andrew P. Woodward, Jan S. Suchodolski and Caroline Mansfield

    Citation: Animal Microbiome 2021 3:42

    Content type: Research Article

    Published on:

  2. Undesirable microbial infiltration into the female bovine reproductive tracts, for example during calving or mating, is likely to disturb the commensal microflora. Persistent establishment and overgrowth of ce...

    Authors: Chian Teng Ong, Conny Turni, Patrick J. Blackall, Gry Boe-Hansen, Ben J. Hayes and Ala E. Tabor

    Citation: Animal Microbiome 2021 3:41

    Content type: Review

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  3. Captive animals, compared to their wild counterparts, generally harbor imbalanced gut microbiota owing, in part, to their altered diets. This imbalance is particularly striking for folivores that fundamentally...

    Authors: Lydia K. Greene, Marina B. Blanco, Elodi Rambeloson, Karlis Graubics, Brian Fanelli, Rita R. Colwell and Christine M. Drea

    Citation: Animal Microbiome 2021 3:39

    Content type: Research Article

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  4. Oral diseases are common in dogs, with microbiota playing a prominent role in the disease process. Oral cavity habitats harbor unique microbiota populations that have relevance to health and disease. Despite t...

    Authors: Patrícia M. Oba, Meredith Q. Carroll, Celeste Alexander, Helen Valentine, Amy J. Somrak, Stephanie C. J. Keating, Adrianna M. Sage and Kelly S. Swanson

    Citation: Animal Microbiome 2021 3:38

    Content type: Research Article

    Published on:

    The Correction to this article has been published in Animal Microbiome 2021 3:40

  5. For more than 30 years, the tetracycline on/off system of inducible gene expression has been leveraged to study disease mechanisms across many research areas, especially that of metabolism and neuroscience. Th...

    Authors: Elizabeth M. Hill, Christopher D. Howard, Tracy L. Bale and Eldin Jašarević

    Citation: Animal Microbiome 2021 3:37

    Content type: Short report

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  6. Probiotics have been demonstrated to ameliorate clinical signs of gastrointestinal diseases in dogs in various studies. However, the effect of probiotics in a healthy population, as well as factors contributin...

    Authors: Jirayu Tanprasertsuk, Aashish R. Jha, Justin Shmalberg, Roshonda B. Jones, LeeAnn M. Perry, Heather Maughan and Ryan W. Honaker

    Citation: Animal Microbiome 2021 3:36

    Content type: Research Article

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  7. Tenacibaculum maritimum is a fish pathogen known for causing serious damage to a broad range of wild and farmed marine fish populations worldwide. The recently sequenced genome of T. maritimum strain NCIMB 2154T ...

    Authors: J. Le Luyer, Q. Schull, P. Auffret, P. Lopez, M. Crusot, C. Belliard, C. Basset, Q. Carradec, J. Poulain, S. Planes and D. Saulnier

    Citation: Animal Microbiome 2021 3:35

    Content type: Research Article

    Published on:

  8. The gut microbiota is critical for host function. Among mammals, host phylogenetic relatedness and diet are strong drivers of gut microbiota structure, but one factor may be more influential than the other. He...

    Authors: Connie A. Rojas, Santiago Ramírez-Barahona, Kay E. Holekamp and Kevin R. Theis

    Citation: Animal Microbiome 2021 3:33

    Content type: Research Article

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  9. Volatile fatty acids (VFA) generated from ruminal fermentation by microorganisms provide up to 75% of total metabolizable energy in ruminants. Ruminal pH is an important factor affecting the profile and produc...

    Authors: Meng M. Li, Robin R. White, Le Luo Guan, Laura Harthan and Mark D. Hanigan

    Citation: Animal Microbiome 2021 3:32

    Content type: Research Article

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  10. The rumen bacterial communities are changing dynamically throughout the first year of calf’s life including the weaning period as a critical event. Rumen microbiome analysis is often limited to invasive rumen ...

    Authors: Nida Amin, Sarah Schwarzkopf, Asako Kinoshita, Johanna Tröscher-Mußotter, Sven Dänicke, Amélia Camarinha-Silva, Korinna Huber, Jana Frahm and Jana Seifert

    Citation: Animal Microbiome 2021 3:31

    Content type: Research Article

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  11. Infectious diseases cause significant production losses in aquaculture every year. Since the gut microbiota plays an essential role in regulating the host immune system, health and physiology, altered gut micr...

    Authors: Davide Bozzi, Jacob A. Rasmussen, Christian Carøe, Harald Sveier, Kristian Nordøy, M. Thomas P. Gilbert and Morten T. Limborg

    Citation: Animal Microbiome 2021 3:30

    Content type: Research Article

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  12. The cotton rat (genus Sigmodon) is an essential small animal model for the study of human infectious disease and viral therapeutic development. However, the impact of the host microbiome on infection outcomes has...

    Authors: Britton A. Strickland, Mira C. Patel, Meghan H. Shilts, Helen H. Boone, Arash Kamali, Wei Zhang, Daniel Stylos, Marina S. Boukhvalova, Christian Rosas-Salazar, Shibu Yooseph, Seesandra V. Rajagopala, Jorge C. G. Blanco and Suman R. Das

    Citation: Animal Microbiome 2021 3:29

    Content type: Research Article

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  13. The knowledge about blood circulating microbiome and its functional relevance in healthy individuals remains limited. An assessment of changes in the circulating microbiome was performed by sequencing peripher...

    Authors: Ainize Peña-Cearra, Alejandro Belanche, Monika Gonzalez-Lopez, José Luis Lavín, Miguel Ángel Pascual-Itoiz, Elisabeth Jiménez, Héctor Rodríguez, Ana Mª. Aransay, Juan Anguita, David R. Yáñez-Ruiz and Leticia Abecia

    Citation: Animal Microbiome 2021 3:28

    Content type: Research Article

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  14. The nutrition of calves from birth until weaning is predominantly from liquid (milk or milk-based) feeds. Liquid feed allowances are often restricted during artificial rearing to accelerate the development of ...

    Authors: Sandeep Kumar, M. Ajmal Khan, Emma Beijer, Jinxin Liu, Katherine K. Lowe, Wayne Young, David A. Mills and Christina D. Moon

    Citation: Animal Microbiome 2021 3:27

    Content type: Research Article

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  15. The microbiomes of foundation (habitat-forming) species such as corals and sponges underpin the biodiversity, productivity, and stability of ecosystems. Consumers shape communities of foundation species throug...

    Authors: Carsten G. B. Grupstra, Kristen M. Rabbitt, Lauren I. Howe-Kerr and Adrienne M. S. Correa

    Citation: Animal Microbiome 2021 3:25

    Content type: Short report

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  16. Little is known about the complex interactions between the diet, the gut microbiota, and enteropathogens. Here, the impact of two specific diets on the composition of the mouse gut microbiota and on the transc...

    Authors: Nicoletta Prax, Stefanie Wagner, Jakob Schardt, Klaus Neuhaus, Thomas Clavel and Thilo M. Fuchs

    Citation: Animal Microbiome 2021 3:24

    Content type: Research Article

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  17. Diet acidification, dietary calcium (Ca) level, and phytase supplementation are known influences on the microbial community in the digestive tract and on phosphorus (P) utilization of broiler chickens. Effects of...

    Authors: Jochen Krieg, Daniel Borda-Molina, Wolfgang Siegert, Vera Sommerfeld, Yung Ping Chi, Hamid Reza Taheri, Dieter Feuerstein, Amélia Camarinha-Silva and Markus Rodehutscord

    Citation: Animal Microbiome 2021 3:23

    Content type: Research Article

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  18. Clinical intervention during bacterial infections in farm animals such as pigs commonly includes the use of antimicrobials. With the rise of antimicrobial resistance and the attempts to reduce the use of antib...

    Authors: Adrian Muwonge, Anbu K. Karuppannan and Tanja Opriessnig

    Citation: Animal Microbiome 2021 3:22

    Content type: Research Article

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  19. The environment exerts a strong influence on the fish external microbiota, with lower diversity and increased abundances of opportunistic bacterial groups characterizing cultured fish compared to their wild co...

    Authors: Andrea M. Tarnecki, Noah J. Levi, Matthew Resley and Kevan Main

    Citation: Animal Microbiome 2021 3:21

    Content type: Research Article

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  20. Gut microbial communities play important roles in nutrient management and can change in response to host diets. The extent of this flexibility and the concomitant resilience is largely unknown in wild animals....

    Authors: Kasun H. Bodawatta, Inga Freiberga, Katerina Puzejova, Katerina Sam, Michael Poulsen and Knud A. Jønsson

    Citation: Animal Microbiome 2021 3:20

    Content type: Research Article

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  21. Contagious Ovine Digital Dermatitis (CODD) is an emerging and common infectious foot disease of sheep which causes severe welfare and economic problems for the sheep industry. The aetiology of the disease is n...

    Authors: J. S. Duncan, J. W. Angell, P. Richards, L. Lenzi, G. J. Staton, D. Grove-White, S. Clegg, G. Oikonomou, S. D. Carter and N. J. Evans

    Citation: Animal Microbiome 2021 3:19

    Content type: Research Article

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  22. Antimicrobial resistance is one of the most urgent threat to global public health, as it can lead to high morbidity, mortality, and medical costs for humans and livestock animals. In ruminants, the rumen micro...

    Authors: Ming-Yuan Xue, Yun-Yi Xie, Yi-Fan Zhong, Jian-Xin Liu, Le Luo Guan and Hui-Zeng Sun

    Citation: Animal Microbiome 2021 3:18

    Content type: Research Article

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  23. Historically the main source of laboratory Xenopus laevis was the environment. The increase in genetically altered animals and evolving governmental constraints around using wild-caught animals for research has l...

    Authors: Maya Z. Piccinni, Joy E. M. Watts, Marie Fourny, Matt Guille and Samuel C. Robson

    Citation: Animal Microbiome 2021 3:17

    Content type: Research Article

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  24. Infectious Bovine Keratoconjunctivitis (IBK), commonly known as pinkeye, is one of the most significant diseases of beef cattle. As such, IBK costs the US beef industry at least 150 million annually. However, ...

    Authors: Alison C. Bartenslager, Nirosh D. Althuge, John Dustin Loy, Matthew M. Hille, Matthew L. Spangler and Samodha C. Fernando

    Citation: Animal Microbiome 2021 3:16

    Content type: Research Article

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  25. Metritis is an inflammatory uterine disease found in ~ 20% of dairy cows after parturition and associated with uterine microbiota with high abundance of Fusobacterium, Bacteroides, and Porphyromonas. Ceftiofur is...

    Authors: Soo Jin Jeon, Federico Cunha, Rodolfo Daetz, Rodrigo C. Bicalho, Svetlana Lima and Klibs N. Galvão

    Citation: Animal Microbiome 2021 3:15

    Content type: Research Article

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  26. The importance of the gut microbiota for health and wellbeing is well established for humans and some land animals. The gut microbiota is supposedly as important for fish, but existing knowledge has many gaps,...

    Authors: Jie Wang, Alexander Jaramillo-Torres, Yanxian Li, Trond M. Kortner, Karina Gajardo, Øyvind Jakobsen Brevik, Jan Vidar Jakobsen and Åshild Krogdahl

    Citation: Animal Microbiome 2021 3:14

    Content type: Research Article

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  27. Marsupials are born much earlier than placental mammals, with most crawling from the birth canal to the protective marsupium (pouch) to further their development. However, little is known about the microbiolog...

    Authors: Sesilje Weiss, David Taggart, Ian Smith, Kristofer M. Helgen and Raphael Eisenhofer

    Citation: Animal Microbiome 2021 3:13

    Content type: Research Article

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  28. Across taxa, animals with depleted intestinal microbiomes show disrupted behavioral phenotypes. Axenic (i.e., microbe-free) mice, zebrafish, and fruit flies exhibit increased locomotor behavior, or hyperactivi...

    Authors: Chelsea A. Weitekamp, Allison Kvasnicka, Scott P. Keely, Nichole E. Brinkman, Xia Meng Howey, Shaza Gaballah, Drake Phelps, Tara Catron, Todd Zurlinden, Emily Wheaton and Tamara Tal

    Citation: Animal Microbiome 2021 3:12

    Content type: Research Article

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  29. Newborn ruminants possess an underdeveloped rumen which is colonized by microorganisms acquired from adult animals and the surrounding environment. This microbial transfer can be limited in dairy systems in wh...

    Authors: Juan Manuel Palma-Hidalgo, Elisabeth Jiménez, Milka Popova, Diego Pablo Morgavi, Antonio Ignacio Martín-García, David Rafael Yáñez-Ruiz and Alejandro Belanche

    Citation: Animal Microbiome 2021 3:11

    Content type: Research Article

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  30. Important changes in microbial composition related to sexual maturation have been already reported in the gut of several vertebrates including mammals, amphibians and fish. Such changes in fish are linked to r...

    Authors: Daniela Rosado, Marcos Pérez-Losada, Ana Pereira, Ricardo Severino and Raquel Xavier

    Citation: Animal Microbiome 2021 3:10

    Content type: Research Article

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  31. Intestinal digesta is commonly used for studying responses of microbiota to dietary shifts, yet evidence is accumulating that it represents an incomplete view of the intestinal microbiota. The present work aim...

    Authors: Yanxian Li, Leonardo Bruni, Alexander Jaramillo-Torres, Karina Gajardo, Trond M. Kortner and Åshild Krogdahl

    Citation: Animal Microbiome 2021 3:8

    Content type: Research Article

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  32. Aquaculture successfully meets global food demands for many fish species. However, aquaculture production of Atlantic cod (Gadus morhua) is just 2.5% of total market production. For cod farming to be a viable eco...

    Authors: C. Keating, M. Bolton-Warberg, J. Hinchcliffe, R. Davies, S. Whelan, A. H. L. Wan, R. D. Fitzgerald, S. J. Davies, U. Z. Ijaz and C. J. Smith

    Citation: Animal Microbiome 2021 3:7

    Content type: Research Article

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  33. Relationships between microbial composition and steatosis are being extensively studied in mammals, and causal relations have been evidenced. In migratory birds the liver can transiently store lipids during pr...

    Authors: Christelle Knudsen, Julien Arroyo, Maxime Even, Laurent Cauquil, Géraldine Pascal, Xavier Fernandez, Franck Lavigne, Stéphane Davail, Sylvie Combes and Karine Ricaud

    Citation: Animal Microbiome 2021 3:6

    Content type: Research Article

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  34. Oysters in coastal environments are subject to fluctuating environmental conditions that may impact the ecosystem services they provide. Oyster-associated microbiomes are responsible for some of these services...

    Authors: Rebecca J. Stevick, Anton F. Post and Marta Gómez-Chiarri

    Citation: Animal Microbiome 2021 3:5

    Content type: Research Article

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  35. Herbivorous mammals co-opt microbes to derive energy and nutrients from diets that are recalcitrant to host enzymes. Recent research has found that captive management—an important conservation tool for many sp...

    Authors: Raphael Eisenhofer, Kristofer M. Helgen and David Taggart

    Citation: Animal Microbiome 2021 3:4

    Content type: Research Article

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  36. Disentangling the dynamics of microbial interactions within communities improves our comprehension of metacommunity assembly of microbiota during host development and under perturbations. To assess the impact ...

    Authors: Bachar Cheaib, Hamza Seghouani, Martin Llewellyn, Katherine Vandal-Lenghan, Pierre-Luc Mercier and Nicolas Derome

    Citation: Animal Microbiome 2021 3:3

    Content type: Research Article

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  37. Chronic recurrent diarrhoea and weight loss is a common problem in captive callitrichids. These symptoms are common clinical features of marmoset wasting syndrome (MWS), a chronic enteric inflammation of unkno...

    Authors: Peter Richards-Rios, Paul Wigley, Javier López, Dominic Wormell and Alberto Barbón

    Citation: Animal Microbiome 2021 3:1

    Content type: Research Article

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  38. With a growing demand for safe and sustainable alternatives to antimicrobials, functional feed ingredients such as plant essential oils have been evaluated for their potential to improve gut health. Amongst th...

    Authors: H. N. Hall, D. J. Wilkinson and M. Le Bon

    Citation: Animal Microbiome 2021 3:2

    Content type: Research Article

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  39. Early development of the gut microbiome is an essential part of neonate health in animals. It is unclear whether the acquisition of gut microbes is different between domesticated animals and their wild counter...

    Authors: Meredith K. Tavenner, Sue M. McDonnell and Amy S. Biddle

    Citation: Animal Microbiome 2020 2:43

    Content type: Research Article

    Published on:

  40. The effect of the production environment and different management practices in rabbit cecal microbiota remains poorly understood. While previous studies have proved the impact of the age or the feed compositio...

    Authors: María Velasco-Galilea, Miriam Guivernau, Miriam Piles, Marc Viñas, Oriol Rafel, Armand Sánchez, Yuliaxis Ramayo-Caldas, Olga González-Rodríguez and Juan P. Sánchez

    Citation: Animal Microbiome 2020 2:40

    Content type: Research Article

    Published on:

  41. Host-specific microbiomes play an important role in individual health and ecology; in marine mammals, epidermal microbiomes may be a protective barrier between the host and its aqueous environment. Understandi...

    Authors: Amy M. Van Cise, Paul R. Wade, Caroline E. C. Goertz, Kathy Burek-Huntington, Kim M. Parsons, Tonya Clauss, Roderick C. Hobbs and Amy Apprill

    Citation: Animal Microbiome 2020 2:39

    Content type: Research Article

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  42. Anthelmintic treatment is a risk factor for intestinal disease in the horse, known as colic. However the mechanisms involved in the onset of disease post anthelmintic treatment are unknown. The interaction bet...

    Authors: S. P. Daniels, J. Leng, J. R. Swann and C. J. Proudman

    Citation: Animal Microbiome 2020 2:38

    Content type: Research Article

    Published on:

  43. Insect-associated microorganisms can provide a wide range of benefits to their host, but insect dependency on these microbes varies greatly. The origin and functionality of insect microbiomes is not well under...

    Authors: Sofia I. F. Gomes, Anna M. Kielak, S. Emilia Hannula, Robin Heinen, Renske Jongen, Ivor Keesmaat, Jonathan R. De Long and T. Martijn Bezemer

    Citation: Animal Microbiome 2020 2:37

    Content type: Research Article

    Published on:

  44. The extent to which deterministic rather than stochastic processes guide gut bacteria co-existence and ultimately their assembling into a community remains largely unknown. Co-occurrence networks of bacterial ...

    Authors: Joan Lluís Riera and Laura Baldo

    Citation: Animal Microbiome 2020 2:36

    Content type: Research Article

    Published on:

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