Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i>
Overfishing of sea cucumber <i>Isostichopus badionotus</i> from Yucatan has led to a major population decline. They are being captured as an alternative to traditional species despite a paucity of information about their health-promoting properties. The transcriptome of the body wall of...
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MDPI AG
2021-04-01
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Online Access: | https://www.mdpi.com/1422-0067/22/8/3882 |
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Article |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Roberto Martín-Hernández Rossanna Rodríguez-Canul Nuvia Kantún-Moreno Miguel A. Olvera-Novoa Oscar Medina-Contreras Cristobal Garikoitz-Legarda Juan Carlos Triviño Jesús Alejandro Zamora-Briseño Víctor May-Solis Alicia Poot-Salazar Juan Antonio Pérez-Vega Judit Gil-Zamorano George Grant Alberto Dávalos Leticia Olivera-Castillo |
spellingShingle |
Roberto Martín-Hernández Rossanna Rodríguez-Canul Nuvia Kantún-Moreno Miguel A. Olvera-Novoa Oscar Medina-Contreras Cristobal Garikoitz-Legarda Juan Carlos Triviño Jesús Alejandro Zamora-Briseño Víctor May-Solis Alicia Poot-Salazar Juan Antonio Pérez-Vega Judit Gil-Zamorano George Grant Alberto Dávalos Leticia Olivera-Castillo Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> International Journal of Molecular Sciences gene expression RNA-sequencing holothurids transcriptome sea cucumber aquaculture |
author_facet |
Roberto Martín-Hernández Rossanna Rodríguez-Canul Nuvia Kantún-Moreno Miguel A. Olvera-Novoa Oscar Medina-Contreras Cristobal Garikoitz-Legarda Juan Carlos Triviño Jesús Alejandro Zamora-Briseño Víctor May-Solis Alicia Poot-Salazar Juan Antonio Pérez-Vega Judit Gil-Zamorano George Grant Alberto Dávalos Leticia Olivera-Castillo |
author_sort |
Roberto Martín-Hernández |
title |
Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> |
title_short |
Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> |
title_full |
Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> |
title_fullStr |
Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> |
title_full_unstemmed |
Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i> |
title_sort |
comparative transcriptomes of the body wall of wild and farmed sea cucumber <i>isostichopus badionotus</i> |
publisher |
MDPI AG |
series |
International Journal of Molecular Sciences |
issn |
1661-6596 1422-0067 |
publishDate |
2021-04-01 |
description |
Overfishing of sea cucumber <i>Isostichopus badionotus</i> from Yucatan has led to a major population decline. They are being captured as an alternative to traditional species despite a paucity of information about their health-promoting properties. The transcriptome of the body wall of wild and farmed <i>I. badionotus</i> has now been studied for the first time by an RNA-Seq approach. The functional profile of wild <i>I. badionotus</i> was comparable with data in the literature for other regularly captured species. In contrast, the metabolism of first generation farmed <i>I. badionotus</i> was impaired. This had multiple possible causes including a sub-optimal growth environment and impaired nutrient utilization. Several key metabolic pathways that are important in effective handling and accretion of nutrients and energy, or clearance of harmful cellular metabolites, were disrupted or dysregulated. For instance, collagen mRNAs were greatly reduced and deposition of collagen proteins impaired. Wild <i>I. badionotus</i> is, therefore, a suitable alternative to other widely used species but, at present, the potential of farmed <i>I. badionotus</i> is unclear. The environmental or nutritional factors responsible for their impaired function in culture remain unknown, but the present data gives useful pointers to the underlying problems associated with their aquaculture. |
topic |
gene expression RNA-sequencing holothurids transcriptome sea cucumber aquaculture |
url |
https://www.mdpi.com/1422-0067/22/8/3882 |
work_keys_str_mv |
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doaj-421051852b4c49f4befe9982e8e0e7262021-04-09T23:02:32ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672021-04-01223882388210.3390/ijms22083882Comparative Transcriptomes of the Body Wall of Wild and Farmed Sea Cucumber <i>Isostichopus badionotus</i>Roberto Martín-Hernández0Rossanna Rodríguez-Canul1Nuvia Kantún-Moreno2Miguel A. Olvera-Novoa3Oscar Medina-Contreras4Cristobal Garikoitz-Legarda5Juan Carlos Triviño6Jesús Alejandro Zamora-Briseño7Víctor May-Solis8Alicia Poot-Salazar9Juan Antonio Pérez-Vega10Judit Gil-Zamorano11George Grant12Alberto Dávalos13Leticia Olivera-Castillo14Bioinformatics and Biostatistics Unit, IMDEA Food Institute, CEI UAM+CSIC, Carretera de Cantoblanco 8, 28049 Madrid, SpainLaboratorio de Inmunología y Biología Molecular, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoLaboratorio de Inmunología y Biología Molecular, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoLaboratorio de Nutrición Acuícola, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoUnidad de Investigación Epidemiológica en Endocrinología y Nutrición, Hospital Infantil de México “Federico Gómez”, Mexico City 06720, MexicoBioinformatics Department, Sistemas Genómicos S.L., Ronda de Guglielmo Marconi 6, 46980 Paterna, SpainBioinformatics Department, Sistemas Genómicos S.L., Ronda de Guglielmo Marconi 6, 46980 Paterna, SpainLaboratorio de Inmunología y Biología Molecular, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoLaboratorio de Nutrición Acuícola, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoCentro Regional de Investigaciones Acuícola y Pesqueras en Yucalpetén, Instituto Nacional de Pesca y Acuacultura, Boulevard del Pescador S/N, Puerto de Abrigo, Progreso 97320, Yucatán, MexicoLaboratorio de Inmunología y Biología Molecular, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoLaboratory of Epigenetics of Lipid Metabolism, IMDEA Food Institute, CEI UAM+CSIC, Carretera de Cantoblanco 8, 28049 Madrid, SpainSchool of Medicine, Medical Sciences and Nutrition, University of Aberdeen, Aberdeen AB25 2ZD, UKLaboratory of Epigenetics of Lipid Metabolism, IMDEA Food Institute, CEI UAM+CSIC, Carretera de Cantoblanco 8, 28049 Madrid, SpainLaboratorio de Nutrición Acuícola, Centro de Investigación y de Estudios Avanzados del IPN-Unidad Mérida, Antigua Carretera a Progreso Km. 6, Mérida 97310, Yucatán, MexicoOverfishing of sea cucumber <i>Isostichopus badionotus</i> from Yucatan has led to a major population decline. They are being captured as an alternative to traditional species despite a paucity of information about their health-promoting properties. The transcriptome of the body wall of wild and farmed <i>I. badionotus</i> has now been studied for the first time by an RNA-Seq approach. The functional profile of wild <i>I. badionotus</i> was comparable with data in the literature for other regularly captured species. In contrast, the metabolism of first generation farmed <i>I. badionotus</i> was impaired. This had multiple possible causes including a sub-optimal growth environment and impaired nutrient utilization. Several key metabolic pathways that are important in effective handling and accretion of nutrients and energy, or clearance of harmful cellular metabolites, were disrupted or dysregulated. For instance, collagen mRNAs were greatly reduced and deposition of collagen proteins impaired. Wild <i>I. badionotus</i> is, therefore, a suitable alternative to other widely used species but, at present, the potential of farmed <i>I. badionotus</i> is unclear. The environmental or nutritional factors responsible for their impaired function in culture remain unknown, but the present data gives useful pointers to the underlying problems associated with their aquaculture.https://www.mdpi.com/1422-0067/22/8/3882gene expressionRNA-sequencingholothuridstranscriptomesea cucumberaquaculture |