Evidence map›Paper›PMID 41348173›Full record

ArticleProbiotics and antimicrobial proteins2026

Genome-Resolved in Silico Analysis of Poultry and Swine Lactobacillales Provides a Data-Driven Framework for Elucidating Metabolic Complementary interactions in Multi-Strain Probiotics.

João Victor Dos Anjos Almeida, Mauro de Medeiros Oliveira, Taís Mayumi Kuniyoshi, Fernando Moisés Mamani Sanca, Carlos Miguel Nóbrega Mendonça, Carlos Emílio Cabrera Matajira, Ana Luiza Louvisi, Ricardo Pinheiro de Souza Oliveira, Alessandro de Mello Varani

Abstract read
PubMed Publisher
In one paragraph

Article in Probiotics and antimicrobial proteins, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

3 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

João Victor Dos Anjos AlmeidaDepartment of Agricultural and Environmental Biotechnology, Faculdade de Ciências Agrárias e Veterinárias - FCAV), São Paulo State University (Universidade Estadual Paulista - UNESP) - School of Agricultural and Veterinary Sciences, Jaboticabal, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0003-1255-5831
Mauro de Medeiros OliveiraDepartment of Agricultural and Environmental Biotechnology, Faculdade de Ciências Agrárias e Veterinárias - FCAV), São Paulo State University (Universidade Estadual Paulista - UNESP) - School of Agricultural and Veterinary Sciences, Jaboticabal, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0002-2048-6664
Taís Mayumi KuniyoshiDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0002-0066-2608
Fernando Moisés Mamani SancaDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0009-0000-1543-5312
Carlos Miguel Nóbrega MendonçaDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0002-7916-5929
Carlos Emílio Cabrera MatajiraDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0003-2300-6678
Ana Luiza LouvisiDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0001-9892-5260
Ricardo Pinheiro de Souza OliveiraDepartment of Biochemical and Pharmaceutical Technology, Faculdade de Ciências Farmacêuticas - FCF), University of São Paulo (Universidade de São Paulo) - School of Pharmaceutical Sciences, Sao Paulo, Sao Paulo, Brazil.ORCID http://orcid.org/0000-0001-8590-804X
Alessandro de Mello VaraniDepartment of Agricultural and Environmental Biotechnology, Faculdade de Ciências Agrárias e Veterinárias - FCAV), São Paulo State University (Universidade Estadual Paulista - UNESP) - School of Agricultural and Veterinary Sciences, Jaboticabal, Sao Paulo, Brazil. alessandro.varani@unesp.br.ORCID http://orcid.org/0000-0002-8876-3269

Funding

Conselho Nacional de Desenvolvimento Científico e Tecnológico 304367/2022-2Conselho Nacional de Desenvolvimento Científico e Tecnológico 312923/2020-1Coordenação de Aperfeiçoamento de Pessoal de Nível Superior Finance Code 001Fundação de Amparo à Pesquisa do Estado de São Paulo 2018/25511-1Fundação de Amparo à Pesquisa do Estado de São Paulo 2020/13271-6Fundação de Amparo à Pesquisa do Estado de São Paulo 2023/04372-1Fundação de Amparo à Pesquisa do Estado de São Paulo 2023/05677-0Fundação de Amparo à Pesquisa do Estado de São Paulo 2023/14986-7Fundação de Amparo à Pesquisa do Estado de São Paulo 2024/05163-0Fundação de Amparo à Pesquisa do Estado de São Paulo 2024/07246-0
6 · The paper itself

Abstract

Probiotics are live microorganisms that provide health benefits to the host by improving digestion, enhancing nutrient absorption, and modulating the immune system. Among them, lactic acid bacteria are known for producing vitamins and short-chain fatty acids, both essential for intestinal health. In this in silico study, we performed high-fidelity (PacBio HiFi) whole-genome sequencing and comprehensive comparative genomic analysis of five Lactobacillales strains (Enterococcus lactis, Enterococcus mundtii, Ligilactobacillus agilis, Limosilactobacillus reuteri, Limosilactobacillus vaginalis) isolated from the intestinal microbiota of chickens and pigs. The assembled genomes ranged from 1.8 to 2.8 Mb, with more than 98% completeness and less than 1.31% contamination. Taxonomic classification, presence of antimicrobial resistance genes, bacteriocin biosynthetic potential, carbohydrate-active enzyme repertoires and vitamin biosynthesis pathways, and capacity to degrade plant polysaccharides were investigated. Functional characterization identified 65 families of carbohydrate-active enzymes, with E. mundtii presenting the greatest diversity (43 families) and absolute number (100 terms) of enzymes. Metabolic reconstruction suggested functional specialization among strains, with xylooligosaccharide degradation exclusive to E. mundtii and pectin utilization limited to E. lactis. Genes related to the biosynthesis of B-complex vitamins, including riboflavin, folate, and menaquinone, showed heterogeneous and complementary distribution among strains. These findings suggest the potential for metabolic complementarity and cross-feeding, where metabolites produced by one strain serve as precursors for biosynthetic pathways in others. Collectively, these genome-resolved insights offer a data-driven framework for designing multi-strain probiotics aimed at improving intestinal health and feed efficiency in poultry and swine.

Indexed as

ChickensGenome, BacterialProbioticsAnimalsBacteriocinsComputer SimulationPoultrySwineBacteriocinsCAZymesComparative genomicsMetabolic complementarityPoultry & swine microbiomeProbiotic candidates

Identifiers

PMID41348173

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.