Intestinal microbiota diversity from broilers with runting and stunting syndrome performed by metagenomics

ABSTRACT

Runting and stunting syndrome (RSS) is an enteric viral disease in commercial poultry that directly affects gut health; however, its influence on gut microbiota remains unknown. This study aimed to investigate the compositional changes in the bacterial community of the ileum of 7-day-old broiler chicks naturally affected or not affected by RSS, using next-generation sequencing (NGS) technology. Twenty-one samples were obtained from the ileal contents and mucosa of 11 chicks with RSS and 10 healthy chicks, raised in a dark house system located on a farm in the state of Minas Gerais, Brazil. The results revealed overall changes in the gut microbiota of the chicks with RSS, including a decrease in microbial richness and diversity. In particular, there was a decrease in Lactobacillus and an increase in Candidatus Arthromitus and Clostridium sensu stricto 1. These results indicate a relationship between viral infection and the gut microbial composition, which can cause gut dysbiosis and may influence inflammation in this organ.

RESEARCH HIGHLIGHTS

• RSS causes dysbiosis of the gut microbiota of the ilea of chicks.

• A difference was found in gut microbiota between chicks with or without RSS.

• Candidatus Arthromitus was predominant in chicks with RSS.

• Clostridium sensu stricto 1 was strictly associated with chicks with RSS.

KEYWORDS:

• Enteric diseases
• ileum
• genomic sequencing
• gut microbiota
• chicks
• intestinal dysbiosis

Disclosure statement

No potential conflict of interest was reported by the authors.

Additional information

Funding

This work was supported by the Fundação de Amparo à Pesquisa do Estado de Minas Gerais (FAPEMIG) under Grant APQ-02714-18. RE and OCFN were supported by a fellowship from Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq – National Council for Scientific and Technological Development), Brazil. DHLS, DLR and MDA were supported by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior, Brazil (CAPES – Coordination of Improvement of Higher Education Personnel), Finance Code 001.