I am Abimael Ortiz Chura, from Peru but with current residence in France. I graduated as a Veterinarian and Zootechnician at the National University of the Altiplano in Peru. Afterward, I obtained my M.Sc. degree in Animal Production and my Ph.D. degree in Veterinary Sciences at University of Buenos Aires, Argentina. Currently, I am working as a post-doctoral researcher in the DINAMIC team of UMRH at INRAE.

In summary, I am a researcher in rumen microbiology, feed efficiency and greenhouse gas emission.

My research program focuses on two key areas:

1). Dietary manipulation of the rumen microbiome to improve animal phenotype,

2). Role of ruminant-associated microbiomes along key life events in ruminant production systems.

My long-term vision is to develop new nutritional strategies for ruminant livestock to benefit society by enhancing food security and generating technologies promoting sustainability, circularity, and contributing to climate change mitigation.


France 🇫🇷


Microbiome data from worldwide ruminants are biased and unFAIR, limiting microbiome targets for improving sustainable production

Microbiome research provides insights to reduce the environmental footprint and improve meat and milk production from ruminants.

However, the microbiome composition depends on the ruminant species, habitat and diet, highlighting the importance of having a good representation of ruminant microbiomes in their local environment to translate research findings into beneficial approaches.

This information is currently lacking. In this survey, we explored the metadata of microbiome studies from farmed ruminants to determine global representativeness and summarized information according to ruminant species, geographic location, body site, and host information.

We accessed data from the International Nucleotide Sequence Database Collaboration. We recovered 47,628 sample metadata with cattle accounting for over two-thirds of the samples. In contrast, goats that have a worldwide population similar to cattle were markedly underrepresented, making up less than 4% of the total samples.

Most samples originated in Western Europe, North America, Australasia and China but countries with large ruminant populations in South America, Africa, Asia, and Eastern Europe were underrepresented. Microbiomes from the gastrointestinal tract were the most frequently studied comprising about 87% of all samples. More than 40% of the samples lacked basic information and many were retrieved from generic taxonomic classifications where the ruminant species was manually recovered. The lack of information on diet, production system, age, or breed limits the reusability of the data for reanalysis and follow-up studies. Taxonomic assignment of the ruminant host and a minimum set of metadata attributes using accepted ontologies adapted to host-associated microbiomes are prerequisites for this. The results from this survey highlight the need to encourage studies of the ruminant microbiome from underrepresented ruminant species and underrepresented countries worldwide.