Engineering the microbiome for animal health and conservation

Probiotics as a tool for disease mitigation in wildlife: insights from food production and medicine

(2018) Valerie J. McKenzie et al.   Annals of the New York Academy of Sciences

Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life

(2018) Cindy J. Castelle et al.   CELL

Biomimicry of volatile-based microbial control for managing emerging fungal pathogens

(2018) K.T. Gabriel et al.   JOURNAL OF APPLIED MICROBIOLOGY

Fecal microbiota transplantation in puppies with canine parvovirus infection

(2018) Giorgio Q. Pereira et al.   JOURNAL OF VETERINARY INTERNAL MEDICINE

Amphibian chytridiomycosis outbreak dynamics are linked with host skin bacterial community structure

(2018) Kieran A. Bates et al.   Nature Communications

Short and long-term effects of a synbiotic on clinical signs, the fecal microbiome, and metabolomic profiles in healthy research cats receiving clindamycin: a randomized, controlled trial

(2018) Jacqueline C. Whittemore et al.   PeerJ

Personalized Gut Mucosal Colonization Resistance to Empiric Probiotics Is Associated with Unique Host and Microbiome Features

(2018) Niv Zmora et al.   CELL

Nutrient- and Dose-Dependent Microbiome-Mediated Protection against a Plant Pathogen

(2018) Maureen Berg et al.   CURRENT BIOLOGY

In vivo CRISPR editing with no detectable genome-wide off-target mutations

(2018) Pinar Akcakaya et al.   NATURE

Effect of probiotic treatment on the clinical course, intestinal microbiome, and toxigenic Clostridium perfringens in dogs with acute hemorrhagic diarrhea

(2018) Anna-Lena Ziese et al.   PLoS One

Gut microbiota-mediated protection against influenza virus subtype H9N2 in chickens is associated with modulation of the innate responses

(2018) Alexander Yitbarek et al.   Scientific Reports

Fecal Microbiota Transplantation Is Associated With Reduced Morbidity and Mortality in Porcine Circovirus Associated Disease

(2018) Megan C. Niederwerder et al.   Frontiers in Microbiology

Probiotics as Means of Diseases Control in Aquaculture, a Review of Current Knowledge and Future Perspectives

(2018) Seyed Hossein Hoseinifar et al.   Frontiers in Microbiology

Developmental trajectories of amphibian microbiota: response to bacterial therapy depends on initial community structure

(2017) Leyla R. Davis et al.   ENVIRONMENTAL MICROBIOLOGY

Intracellular delivery of biologic therapeutics by bacterial secretion systems

(2017) Barnabas James Walker et al.   EXPERT REVIEWS IN MOLECULAR MEDICINE

The Effects of Captivity on the Mammalian Gut Microbiome

(2017) Valerie J. McKenzie et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Use of probiotics in small animal veterinary medicine

(2017) Maria C. Jugan et al.   JAVMA-JOURNAL OF THE AMERICAN VETERINARY MEDICAL ASSOCIATION

Bacteriophages as an alternative to conventional antibiotic use for the prevention or treatment of Paenibacillus larvae in honeybee hives

(2017) T. Scott Brady et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Efficacy of a Probiotic-Prebiotic Supplement on Incidence of Diarrhea in a Dog Shelter: A Randomized, Double-Blind, Placebo-Controlled Trial

(2017) L. Rose et al.   JOURNAL OF VETERINARY INTERNAL MEDICINE

Prodigiosin, Violacein, and Volatile Organic Compounds Produced by Widespread Cutaneous Bacteria of Amphibians Can Inhibit Two Batrachochytrium Fungal Pathogens

(2017) Douglas C. Woodhams et al.   MICROBIAL ECOLOGY

Weight gain by gut microbiota manipulation in productive animals

(2017) Emmanouil Angelakis   MICROBIAL PATHOGENESIS

Environmental reservoirs of pathogenic mycobacteria across the Ethiopian biogeographical landscape

(2017) Hayley C. King et al.   PLoS One

The gastrointestinal microbiome and its association with the control of pathogens in broiler chicken production: A review

(2017) Viviana Clavijo et al.   POULTRY SCIENCE

Dietary Bacillus subtilis- based direct-fed microbials alleviate LPS-induced intestinal immunological stress and improve intestinal barrier gene expression in commercial broiler chickens

(2017) Ujvala Deepthi Gadde et al.   RESEARCH IN VETERINARY SCIENCE

Effect of Enterococcus Faecium Strain SF68 on Gastrointestinal Signs and Fecal Microbiome in Cats Administered Amoxicillin-Clavulanate

(2017) C. Torres-Henderson et al.   Topics in Companion Animal Medicine

Bacteriophage therapy to combat bacterial infections in poultry

(2017) Andrzej Wernicki et al.   Virology Journal

CRISPR-Cas Technologies and Applications in Food Bacteria

(2017) Emily Stout et al.   Annual Review of Food Science and Technology

Antibiotic exposure perturbs the gut microbiota and elevates mortality in honeybees

(2017) Kasie Raymann et al.   PLOS BIOLOGY

Fight Fungi with Fungi: Antifungal Properties of the Amphibian Mycobiome

(2017) Patrick J. Kearns et al.   Frontiers in Microbiology

Development of the gut microbiota in infancy and its impact on health in later life

(2017) Masaru Tanaka et al.   ALLERGOLOGY INTERNATIONAL

Under Pressure: Interactions between Commensal Microbiota and the Teleost Immune System

(2017) Cecelia Kelly et al.   Frontiers in Immunology

Microbiota Transfer Therapy alters gut ecosystem and improves gastrointestinal and autism symptoms: an open-label study

(2017) Dae-Wook Kang et al.   Microbiome

Changes in microbial ecology after fecal microbiota transplantation for recurrent C. difficile infection affected by underlying inflammatory bowel disease

(2017) Sahil Khanna et al.   Microbiome

Stress and stability: applying the Anna Karenina principle to animal microbiomes

(2017) Jesse R. Zaneveld et al.   Nature Microbiology

Deblur Rapidly Resolves Single-Nucleotide Community Sequence Patterns

(2017) Amnon Amir et al.   mSystems

Bacteriocins of lactic acid bacteria: extending the family

(2016) Patricia Alvarez-Sieiro et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Microbiomes, metagenomics, and primate conservation: New strategies, tools, and applications

(2016) R.M. Stumpf et al.   BIOLOGICAL CONSERVATION

Defining and improving the genome-wide specificities of CRISPR–Cas9 nucleases

(2016) Shengdar Q. Tsai et al.   NATURE REVIEWS GENETICS

Innate Immunity and Asthma Risk in Amish and Hutterite Farm Children

(2016) Michelle M. Stein et al.   NEW ENGLAND JOURNAL OF MEDICINE

Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees

(2016) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Immunization with a heat-killed preparation of the environmental bacteriumMycobacterium vaccaepromotes stress resilience in mice

(2016) Stefan O. Reber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Probiotic treatment restores protection against lethal fungal infection lost during amphibian captivity

(2016) Jordan G. Kueneman et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Managing Amphibian Disease with Skin Microbiota

(2016) Douglas C. Woodhams et al.   TRENDS IN MICROBIOLOGY

Using the Ferret as an Animal Model for Investigating Influenza Antiviral Effectiveness

(2016) Ding Y. Oh et al.   Frontiers in Microbiology

Using “Omics” and Integrated Multi-Omics Approaches to Guide Probiotic Selection to Mitigate Chytridiomycosis and Other Emerging Infectious Diseases

(2016) Eria A. Rebollar et al.   Frontiers in Microbiology

Dog and human inflammatory bowel disease rely on overlapping yet distinct dysbiosis networks

(2016) Yoshiki Vázquez-Baeza et al.   Nature Microbiology

The Oral and Skin Microbiomes of Captive Komodo Dragons Are Significantly Shared with Their Habitat

(2016) Embriette R. Hyde et al.   mSystems

Using the gut microbiota as a novel tool for examining colobine primate GI health

(2016) Katherine R. Amato et al.   Global Ecology and Conservation

Symbiont-derived sphingolipids modulate mucosal homeostasis and B cells in teleost fish

(2016) Ali Sepahi et al.   Scientific Reports

Paenibacillus larvae-Directed Bacteriophage HB10c2 and Its Application in American Foulbrood-Affected Honey Bee Larvae

(2015) Hannes Beims et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Changes in the equine fecal microbiota associated with the use of systemic antimicrobial drugs

(2015) Marcio C Costa et al.   BMC Veterinary Research

Antifungal isolates database of amphibian skin-associated bacteria and function against emerging fungal pathogens

(2015) Douglas C. Woodhams et al.   ECOLOGY

Phage Therapy is Effective in Protecting Honeybee Larvae from American Foulbrood Disease

(2015) Sara Ghorbani-Nezami et al.   JOURNAL OF INSECT SCIENCE

PrimiOtic™ and PrimiOtic Plus™: novel probiotic for primates suffering from idiopathic chronic diarrhea

(2015) Jaime L. Lecker et al.   LAB ANIMAL

Effect of Probiotics/Prebiotics on Cattle Health and Productivity

(2015) Yutaka Uyeno et al.   MICROBES AND ENVIRONMENTS

Bacteriocin production augments niche competition by enterococci in the mammalian gastrointestinal tract

(2015) Sushma Kommineni et al.   NATURE

Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states

(2015) Peng Ge et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The ecology of the microbiome: Networks, competition, and stability

(2015) K. Z. Coyte et al.   SCIENCE

Atomic structures of a bactericidal contractile nanotube in its pre- and postcontraction states

(2015) Peng Ge et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Diversity and functions of volatile organic compounds produced by Streptomyces from a disease-suppressive soil

(2015) Viviane Cordovez et al.   Frontiers in Microbiology

Redundancy, resilience, and host specificity of the ruminal microbiota: implications for engineering improved ruminal fermentations

(2015) Paul J. Weimer   Frontiers in Microbiology

Dynamic changes in short- and long-term bacterial composition following fecal microbiota transplantation for recurrent Clostridium difficile infection

(2015) Alexa Weingarden et al.   Microbiome

The Tasmanian devil microbiome—implications for conservation and management

(2015) Yuanyuan Cheng et al.   Microbiome

Seasonal and ontogenetic variation of skin microbial communities and relationships to natural disease dynamics in declining amphibians

(2015) Ana V. Longo et al.   Royal Society Open Science

Defining dysbiosis and its influence on host immunity and disease

(2014) Charisse Petersen et al.   CELLULAR MICROBIOLOGY

Rumen transfaunation

(2014) E.J. DePeters et al.   IMMUNOLOGY LETTERS

An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile

(2014) Matthew Miezeiewski et al.   ISME Journal

Active dry Saccharomyces cerevisiae can alleviate the effect of subacute ruminal acidosis in lactating dairy cows

(2014) O. AlZahal et al.   JOURNAL OF DAIRY SCIENCE

The International Scientific Association for Probiotics and Prebiotics consensus statement on the scope and appropriate use of the term probiotic

(2014) Colin Hill et al.   Nature Reviews Gastroenterology & Hepatology

Stability of Microbiota Facilitated by Host Immune Regulation: Informing Probiotic Strategies to Manage Amphibian Disease

(2014) Denise Küng et al.   PLoS One

Interacting Symbionts and Immunity in the Amphibian Skin Mucosome Predict Disease Risk and Probiotic Effectiveness

(2014) Douglas C. Woodhams et al.   PLoS One

The pathogenBatrachochytrium dendrobatidisdisturbs the frog skin microbiome during a natural epidemic and experimental infection

(2014) Andrea J. Jani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phage therapy—constraints and possibilities

(2014) Anders S. Nilsson   UPSALA JOURNAL OF MEDICAL SCIENCES

Mitigating amphibian chytridiomycosis with bioaugmentation: characteristics of effective probiotics and strategies for their selection and use

(2013) Molly C. Bletz et al.   ECOLOGY LETTERS

Microbial community dynamics and effect of environmental microbial reservoirs on red-backed salamanders (Plethodon cinereus)

(2013) Andrew H Loudon et al.   ISME Journal

Diarrhea-associated pathogens, lactobacilli and cellulolytic bacteria in equine feces: Responses to antibiotic challenge

(2013) Brittany E. Harlow et al.   VETERINARY MICROBIOLOGY

Cytotoxic Chromosomal Targeting by CRISPR/Cas Systems Can Reshape Bacterial Genomes and Expel or Remodel Pathogenicity Islands

(2013) Reuben B. Vercoe et al.   PLoS Genetics

Long-Term Follow-Up of Colonoscopic Fecal Microbiota Transplant for Recurrent Clostridium difficile Infection

(2012) Lawrence J Brandt et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Should We Standardize the 1,700-Year-Old Fecal Microbiota Transplantation?

(2012) Faming Zhang et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

Comparison of the Fecal Microbiota of Healthy Horses and Horses with Colitis by High Throughput Sequencing of the V3-V5 Region of the 16S rRNA Gene

(2012) Marcio C. Costa et al.   PLoS One

Treating Clostridium difficile Infection With Fecal Microbiota Transplantation

(2011) Johan S. Bakken et al.   Clinical Gastroenterology and Hepatology

Probiotics/direct fed microbials for Salmonella control in poultry

(2011) G. Tellez et al.   FOOD RESEARCH INTERNATIONAL

Development of the Human Gastrointestinal Microbiota and Insights From High-Throughput Sequencing

(2011) Maria Gloria Dominguez-Bello et al.   GASTROENTEROLOGY

Probiotics for Prevention and Treatment of Diarrhea

(2011) Stefano Guandalini   JOURNAL OF CLINICAL GASTROENTEROLOGY

Socially transmitted gut microbiota protect bumble bees against an intestinal parasite

(2011) H. Koch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Impact of a Consortium of Fermented Milk Strains on the Gut Microbiome of Gnotobiotic Mice and Monozygotic Twins

(2011) N. P. McNulty et al.   Science Translational Medicine

Probiotics – do they have a role in the pig industry?

(2010) M. Kenny et al.   Animal

Effects of Lactobacilli on Cytokine Expression by Chicken Spleen and Cecal Tonsil Cells

(2010) J. T. Brisbin et al.   Clinical and Vaccine Immunology

Host specificity of the ruminal bacterial community in the dairy cow following near-total exchange of ruminal contents1

(2010) P.J. Weimer et al.   JOURNAL OF DAIRY SCIENCE

The effect of the macrolide antibiotic tylosin on microbial diversity in the canine small intestine as demonstrated by massive parallel 16S rRNA gene sequencing

(2009) Jan S Suchodolski et al.   BMC MICROBIOLOGY

Feeding beneficial bacteria: A natural solution for increasing efficiency and decreasing pathogens in animal agriculture

(2009) J. F. Flint et al.   JOURNAL OF APPLIED POULTRY RESEARCH

Effects of a probiotic intervention in acute canine gastroenteritis - a controlled clinical trial

(2009) H. K. Herstad et al.   JOURNAL OF SMALL ANIMAL PRACTICE

Probiotics in animal nutrition and health

(2009) F. Chaucheyras-Durand et al.   Beneficial Microbes

Evaluating the links between climate, disease spread, and amphibian declines

(2008) J. R. Rohr et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA