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Ribeiro DM, Coelho D, Costa M, Carvalho DFP, Leclercq CC, Renaut J, Freire JPB, Almeida AM, Mestre Prates JA. Integrated transcriptomics and proteomics analysis reveals muscle metabolism effects of dietary Ulva lactuca and ulvan lyase supplementation in weaned piglets. Sci Rep 2024; 14:4589. [PMID: 38409238 DOI: 10.1038/s41598-024-55462-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2023] [Accepted: 02/23/2024] [Indexed: 02/28/2024] Open
Abstract
Seaweeds, including the green Ulva lactuca, can potentially reduce competition between feed, food, and fuel. They can also contribute to the improved development of weaned piglets. However, their indigestible polysaccharides of the cell wall pose a challenge. This can be addressed through carbohydrase supplementation, such as the recombinant ulvan lyase. The objective of our study was to assess the muscle metabolism of weaned piglets fed with 7% U. lactuca and 0.01% ulvan lyase supplementation, using an integrated transcriptomics (RNA-seq) and proteomics (LC-MS) approach. Feeding piglets with seaweed and enzyme supplementation resulted in reduced macronutrient availability, leading to protein degradation through the proteasome (PSMD2), with resulting amino acids being utilized as an energy source (GOT2, IDH3B). Moreover, mineral element accumulation may have contributed to increased oxidative stress, evident from elevated levels of antioxidant proteins like catalase, as a response to maintaining tissue homeostasis. The upregulation of the gene AQP7, associated with the osmotic stress response, further supports these findings. Consequently, an increase in chaperone activity, including HSP90, was required to repair damaged proteins. Our results suggest that enzymatic supplementation may exacerbate the effects observed from feeding U. lactuca alone, potentially due to side effects of cell wall degradation during digestion.
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Affiliation(s)
- David Miguel Ribeiro
- Associate Laboratory TERRA, LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017, Lisbon, Portugal
| | - Diogo Coelho
- Faculdade de Medicina Veterinária, CIISA - Centre for Interdisciplinary Research in Animal Health, Universidade de Lisboa, 1300-477, Lisbon, Portugal
- Centre of Molecular and Environmental Biology (CBMA), University of Minho, Campus de Gualtar, 4710-057, Braga, Portugal
| | - Mónica Costa
- Faculdade de Medicina Veterinária, CIISA - Centre for Interdisciplinary Research in Animal Health, Universidade de Lisboa, 1300-477, Lisbon, Portugal
- Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Lisbon, Portugal
| | - Daniela Filipa Pires Carvalho
- Associate Laboratory TERRA, LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017, Lisbon, Portugal
| | - Céline C Leclercq
- Biotechnology Environmental Analysis Platform (BEAP), Environmental Research and Innovation Department (ERIN), LIST- Luxembourg Institute of Science and Technology, 5, Rue Bommel, 4940, Hautcharage, Luxembourg
| | - Jenny Renaut
- Biotechnology Environmental Analysis Platform (BEAP), Environmental Research and Innovation Department (ERIN), LIST- Luxembourg Institute of Science and Technology, 5, Rue Bommel, 4940, Hautcharage, Luxembourg
| | - João Pedro Bengala Freire
- Associate Laboratory TERRA, LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017, Lisbon, Portugal
| | - André Martinho Almeida
- Associate Laboratory TERRA, LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017, Lisbon, Portugal
| | - José António Mestre Prates
- Faculdade de Medicina Veterinária, CIISA - Centre for Interdisciplinary Research in Animal Health, Universidade de Lisboa, 1300-477, Lisbon, Portugal.
- Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Lisbon, Portugal.
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Ribeiro DM, Leclercqc CC, Charton SAB, Costa MM, Carvalho DFP, Sergeant K, Cocco E, Renaut J, Freire JPB, Prates JAM, de Almeida AM. The impact of dietary Laminaria digitata and alginate lyase supplementation on the weaned piglet liver: A comprehensive proteomics and metabolomics approach. J Proteomics 2024; 293:105063. [PMID: 38151157 DOI: 10.1016/j.jprot.2023.105063] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Revised: 11/30/2023] [Accepted: 12/06/2023] [Indexed: 12/29/2023]
Abstract
The brown seaweed Laminaria digitata, a novel feedstuff for weaned piglets, has potentially beneficial prebiotic properties. However, its recalcitrant cell wall challenges digestion in monogastrics. Alginate lyase is a promising supplement to mitigate this issue. This study's aim was to investigate the impact of incorporating 10% dietary Laminaria digitata, supplemented with alginate lyase, on the hepatic proteome and metabolome of weaned piglets. These diets introduced minor variations to the metabolome and caused significant shifts in the proteome. Dietary seaweed provided a rich source of n-3 PUFAs that could signal hepatic fatty acid oxidation (FABP, ACADSB and ALDH1B1). This may have affected the oxidative stability of the tissue, requiring an elevated abundance of GST for regulation. The presence of reactive oxygen species likely inflicted protein damage, triggering increased proteolytic activity (LAPTM4B and PSMD4). Alginate lyase supplementation augmented the number of differentially abundant proteins, which included GBE1 and LDHC, contributing to maintain circulating glucose levels by mobilizing glycogen stores and branched-chain amino acids. The enzymatic supplementation with alginate lyase amplified the effects of the seaweed-only diet. An additional filter was employed to test the effect of missing values on the proteomics analysis, which is discussed from a technical perspective. SIGNIFICANCE: Brown seaweeds such as Laminaria digitata have prebiotic and immune-modulatory components, such as laminarin, that can improve weaned piglet health. However, they have recalcitrant cell wall polysaccharides, such as alginate, that can elicit antinutritional effects on the monogastric digestive system. The aim of this study was to evaluate the effect of a high level of dietary L. digitata and alginate lyase supplementation on the hepatic metabolism of weaned piglets, using high throughput Omics approaches.
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Affiliation(s)
- David M Ribeiro
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Center, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Celine C Leclercqc
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Sophie A B Charton
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Mónica M Costa
- CIISA - Centre for Interdisciplinary Research in Animal Health, Faculdade de Medicina Veterinária, Universidade de Lisboa, 1300-477 Lisboa, Portugal; Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Portugal
| | - Daniela F P Carvalho
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Center, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Kjell Sergeant
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Emmanuelle Cocco
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Jenny Renaut
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - João P B Freire
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Center, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - José A M Prates
- CIISA - Centre for Interdisciplinary Research in Animal Health, Faculdade de Medicina Veterinária, Universidade de Lisboa, 1300-477 Lisboa, Portugal; Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Portugal
| | - André M de Almeida
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Center, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal.
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Ribeiro DM, Palma M, Salvado J, Hernández-Castellano LE, Capote J, Castro N, Argüello A, Matzapetakis M, Araújo SS, de Almeida AM. Goat mammary gland metabolism: An integrated Omics analysis to unravel seasonal weight loss tolerance. J Proteomics 2023; 289:105009. [PMID: 37757955 DOI: 10.1016/j.jprot.2023.105009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2023] [Revised: 09/15/2023] [Accepted: 09/18/2023] [Indexed: 09/29/2023]
Abstract
Seasonal weight loss (SWL), is a major limitation to animal production. In the Canary Islands, there are two dairy goat breeds with different levels of tolerance to SWL: Majorera (tolerant) and Palmera (susceptible). Our team has studied the response of these breeds to SWL using different Omics tools. The objective of this study was to integrate such results in a data driven approach and using dedicated tools, namely the DIABLO method. The outputs of our analysis mainly separate unrestricted from restricted goats. Metabolites behave as "hub" molecules, grouping interactions with several genes and proteins. Unrestricted goats upregulated protein synthesis, along with arginine catabolism and adipogenesis pathways, which are related with higher anabolic rates and a larger proportion of secretory tissue, in agreement with their higher milk production. Contrarily, restricted goats seemingly increased the synthesis of acetyl-CoA through serine and acetate conversion into pyruvate. This may have occurred to increase fatty acid synthesis and/or to use them as an energy source in detriment to glucose, which was more available in the diet of unrestricted goats. Lastly, restricted Palmera upregulated the expression of PEBP4 and GPD1 genes compared to all other groups, which might support their use as putative biomarkers for SWL susceptibility. SIGNIFICANCE: Seasonal weight loss (SWL) is a major issue influencing animal production in the tropics and Mediterranean. By studying its impact on the mammary gland of tolerant and susceptible dairy goat breeds, using Omics, we aim at surveying the tissue for possible biomarkers that reflect these traits. In this study, data integration of three Omics (transcriptomics, proteomics and metabolomics) was performed using bioinformatic tools, to relate putative biomarkers and evaluate all three levels of information; in a novel approach. This information can enhance selection programs, lowering the impact of SWL on food production systems.
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Affiliation(s)
- David Miguel Ribeiro
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Mariana Palma
- ITQB/UNL - Instituto de Tecnologia Química e Biológica António Xavier, Universidade de Lisboa, Oeiras, Portugal; Centre for Functional Ecology, TERRA Associate Laboratory, Department of Life Sciences, University of Coimbra, Coimbra, Portugal
| | - José Salvado
- ITQB/UNL - Instituto de Tecnologia Química e Biológica António Xavier, Universidade de Lisboa, Oeiras, Portugal
| | - Lorenzo E Hernández-Castellano
- IUSA-ONEHEALTH 4. Animal Production and Biotechnology, Institute of Animal Health and Food Safety, Universidad de Las Palmas de Gran Canaria, 35412 Arucas, Spain
| | - Juan Capote
- Canary Islands Institute of Agronomical Research, Valle Guerra, Spain
| | - Noemí Castro
- IUSA-ONEHEALTH 4. Animal Production and Biotechnology, Institute of Animal Health and Food Safety, Universidad de Las Palmas de Gran Canaria, 35412 Arucas, Spain
| | - Anastasio Argüello
- IUSA-ONEHEALTH 4. Animal Production and Biotechnology, Institute of Animal Health and Food Safety, Universidad de Las Palmas de Gran Canaria, 35412 Arucas, Spain
| | - Manolis Matzapetakis
- ITQB/UNL - Instituto de Tecnologia Química e Biológica António Xavier, Universidade de Lisboa, Oeiras, Portugal
| | - Susana S Araújo
- Association BLC3 - Technology and Innovation Campus, Centre Bio R&D Unit | North Delegation, Edíficio SIDE-UP, 5340-257 Macedo de Cavaleiros, Portugal
| | - André Martinho de Almeida
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal.
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Ribeiro DM, Leclercq CC, Charton SAB, Costa MM, Carvalho DFP, Cocco E, Sergeant K, Renaut J, Freire JPB, Prates JAM, de Almeida AM. Enhanced ileum function in weaned piglets via Laminaria digitata and alginate lyase dietary inclusion: A combined proteomics and metabolomics analysis. J Proteomics 2023; 289:105013. [PMID: 37775079 DOI: 10.1016/j.jprot.2023.105013] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2023] [Revised: 09/16/2023] [Accepted: 09/25/2023] [Indexed: 10/01/2023]
Abstract
Laminaria digitata, a brown seaweed with prebiotic properties, can potentially enhance the resilience of weaned piglets to nutritional distress. However, their cell wall polysaccharides elude digestion by monogastric animals' endogenous enzymes. In vitro studies suggest alginate lyase's ability to degrade such polysaccharides. This study aimed to assess the impact of a 10% dietary inclusion of L. digitata and alginate lyase supplementation on the ileum proteome and metabolome, adopting a hypothesis-generating approach. Findings indicated that control piglets escalated glucose usage as an enteric energy source, as evidenced by the increased abundance of PKLR and PCK2 proteins and decreased tissue glucose concentration. Additionally, the inclusion of seaweed fostered a rise in proteins linked to enhanced enterocyte structural integrity (ACTBL2, CRMP1, FLII, EML2 and MYLK), elevated peptidase activity (NAALADL1 and CAPNS1), and heightened anti-inflammatory activity (C3), underscoring improved intestinal function. In addition, seaweed-fed piglets showed a reduced abundance of proteins related to apoptosis (ERN2) and proteolysis (DPP4). Alginate lyase supplementation appeared to amplify the initial effects of seaweed-only feeding, by boosting the number of differential proteins within the same pathways. This amplification is potentially due to increased intracellular nutrient availability, making a compelling case for further exploration of this dietary approach. SIGNIFICANCE: Pig production used to rely heavily on antibiotics and zinc oxide to deal with post-weaning stress in a cost-effective way. Their negative repercussions on public health and the environment have motivated heavy restrictions, and a consequent search for alternative feed ingredients/supplements. One of such alternatives is Laminaria digitata, a brown seaweed whose prebiotic components that can help weaned piglets deal with nutritional stress, by improving their gut health and immune status. However, their recalcitrant cell walls have antinutritional properties, for which alginate lyase supplementation is a possible solution. By evaluating ileal metabolism as influenced by dietary seaweed and enzyme supplementation, we aim at discovering how the weaned piglet adapts to them and what are their effects on this important segment of the digestive system.
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Affiliation(s)
- David Miguel Ribeiro
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Céline C Leclercq
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Sophie A B Charton
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Mónica M Costa
- CIISA - Centre for Interdisciplinary Research in Animal Health, Faculdade de Medicina Veterinária, Universidade de Lisboa, 1300-477 Lisboa, Portugal; Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Lisbon, Portugal
| | - Daniela Filipa Pires Carvalho
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - Emmanuelle Cocco
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Kjell Sergeant
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - Jenny Renaut
- LIST- Luxembourg Institute of Science and Technology, Biotechnologies and Environmental Analytics Platform (BEAP), Environmental Research and Innovation Department (ERIN), 5, rue Bommel, L-4940 Hautcharage, Luxembourg
| | - João Pedro Bengala Freire
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal
| | - José António Mestre Prates
- CIISA - Centre for Interdisciplinary Research in Animal Health, Faculdade de Medicina Veterinária, Universidade de Lisboa, 1300-477 Lisboa, Portugal; Laboratório Associado para Ciência Animal e Veterinária (AL4AnimalS), Lisbon, Portugal
| | - André Martinho de Almeida
- LEAF - Linking Landscape, Environment, Agriculture and Food Research Centre, Associate Laboratory TERRA, Instituto Superior de Agronomia, Universidade de Lisboa, Tapada da Ajuda, 1349-017 Lisboa, Portugal.
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