Multi-Omic Biogeography of the Gastrointestinal Microbiota of a Pre-Weaned Lamb

Palomba, Antonio; Tanca, Alessandro; Fraumene, Cristina; Abbondio, Marcello; Fancello, Francesco; Atzori, Alberto Stanislao; Uzzau, Sergio

doi:10.3390/proteomes5040036

Cited by 12 publications

(5 citation statements)

References 56 publications

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“…3 ). This finding agrees with a research study that revealed that other Firmicutes members showing a great abundance in lamb’s gut were Lachnospiraceae ( Palomba et al 2017 ).…”

Section: Discussionsupporting

confidence: 93%

Comparative Analysis of the Microbiota Between Rumen and Duodenum of Twin Lambs Based on Diets of Ceratoides or Alfalfa

Akonyani

Feng

Ying

et al. 2021

Polish Journal of Microbiology

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In our previous study, diet directly impacted the microbiota of the rumen in twin lambs. The duodenum is the first part of the small intestine, so we seek to determine whether there is a difference in the digesta between the two feed groups HFLP (high fiber, low protein) and LFHP (low fiber, high protein), and its impact on the biodiversity and metabolism of the duodenum. Results showed that the number of Operational Taxonomic Units (OTUs) in the duodenum (2,373 OTUs) was more than those in the rumen (1,230 OTUs), and 143 OTUs were significantly different in the duodenum between the two groups. The two most predominant phyla were Bacteriodetes and Firmicutes, but this ratio was reversed between the rumen and duodenum of lambs fed different feedstuffs. The difference in the digesta that greatly changed the biodiversity of the rumen and duodenum could affect the microbial community in the gastrointestinal tract (GIT). Sixteen metabolites were significantly different in the duodenum between the two groups based on the metabolome analysis. The relationships were built between the microbiome and the metabolome based on the correlation analysis. Some metabolites have a potential role in influencing meat quality, which indicated that the diet could affect the microbiota community and finally change meat quality. This study could explain how the diet affects the rumen and duodenum’s microbiota, lay a theoretical basis for controlling feed intake, and determine the relationship between the duodenum’s microbiota and metabolism.

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“…3 ). This finding agrees with a research study that revealed that other Firmicutes members showing a great abundance in lamb’s gut were Lachnospiraceae ( Palomba et al 2017 ).…”

Section: Discussionsupporting

confidence: 93%

Comparative Analysis of the Microbiota Between Rumen and Duodenum of Twin Lambs Based on Diets of Ceratoides or Alfalfa

Akonyani

Feng

Ying

et al. 2021

Polish Journal of Microbiology

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“…Activity-based probe enrichment has been applied in a metaproteomic study of the gut microbiome and was effective in identifying additional set of microbial proteins and revealing protein changes that were not seen in unenriched samples . In addition, different intestinal segments of mammalians harbor different compositions of microbiota; , therefore, the isolation of microbiomes from different regions of gastrointestinal tract might provide another way to simplify the metaproteome by examining a specific set of microbes.…”

Section: Coverage Of Metaproteomicsmentioning

confidence: 99%

Perspective and Guidelines for Metaproteomics in Microbiome Studies

Zhang

Figeys

2019

J. Proteome Res.

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The microbiome is emerging as a prominent factor affecting human health, and its dysbiosis is associated with various diseases. Compositional profiling of microbiome is increasingly being supplemented with functional characterization. Metaproteomics is intrinsically focused on functional changes and therefore will be an important tool in those studies of the human microbiome. In the past decade, development of new experimental and bioinformatic approaches for metaproteomics has enabled large-scale human metaproteomic studies. However, challenges still exist, and there remains a lack of standardizations and guidelines for properly performing metaproteomic studies on human microbiome. Herein, we provide a perspective of recent developments, the challenges faced, and the future directions of metaproteomics and its applications. In addition, we propose a set of guidelines/ recommendations for performing and reporting the results from metaproteomic experiments for the study of human microbiomes. We anticipate that these guidelines will be optimized further as more metaproteomic questions are raised and addressed, and metaproteomic applications are published, so that they are eventually recognized and applied in the field.

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“…The absence of a dominant genus in the jejunum, which is highly diverse with 222 genera compared to 185 in the rumen, indicates that its microbiome aids in breaking down numerous small molecules from the food digested by duodenal enzymes before their transport from the jejunum to the liver (Palomba et al, 2017), also significantly increased the diversity of species and abundance of microbes which used different carbohydrates benefit the growth and immune function of the gastrointestinal tract (Cui et al, 2020).…”

Section: Discussionmentioning

confidence: 99%

Microbial colonization dynamics of the postnatal digestive tract of Bos indicus calves

Robles‐Rodríguez,

Muley,

González‐Dávalos

et al. 2023

Animal Science Journal

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The rumen and the jejunum of calves have distinct functional roles; the former is in the storage and fermentation of feed, and the latter is in transporting digesta to the ileum. It is unknown how nutrition changes the evolution of the microbiome of these organs after birth. We sequenced and characterized the entire microbiome of the rumen and the jejunum from Bos indicus calves of the Mexican Tropics to study their dynamics at Days 0, 7, 28, and 42 after birth. Operational taxonomic units (OTUs) belonging to 185 and 222 genera from 15 phylum were observed in the organs, respectively. The most abundant OTUs were Proteobacteria, Firmicutes, Actinobacteria, and Bacteroidetes. We observed that proteobacterial species were outcompeted after the first week of life by Bacteroidetes and Firmicutes in the rumen and the jejunum, respectively. Moreover, Prevotella species were found to predominate in the rumen (36% of total OTUs), while the jejunum microbiome is composed of small proportions of several genera. Presumably, their high relative abundance assists in specialized functions and is more likely in fermentation since they are anaerobes. In summary, the rumen and the jejunum microbiomes were outcompeted by new microbiomes in a dynamic process that begins at birth.

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Multi-Omic Biogeography of the Gastrointestinal Microbiota of a Pre-Weaned Lamb

Cited by 12 publications

References 56 publications

Comparative Analysis of the Microbiota Between Rumen and Duodenum of Twin Lambs Based on Diets of Ceratoides or Alfalfa

Comparative Analysis of the Microbiota Between Rumen and Duodenum of Twin Lambs Based on Diets of Ceratoides or Alfalfa

Perspective and Guidelines for Metaproteomics in Microbiome Studies

Microbial colonization dynamics of the postnatal digestive tract of Bos indicus calves

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