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SustainAble Farming for Effective Aquaculture

Deliverables

Methods for metabolites analysis in shrimp intestines

Metabolites will be extracted from shrimp intestines from T5.1. The frozen tissues will be lyophilized, ground and extracted with chloroform/methanol/water-based solution. The extraction conditions will be optimized to obtain maximum yield of the targeted metabolites involved in quorum sensing pathway. The extracted metabolites will be subjected to UPLC-MS/MS. Chromatographic separation and mass spectrometry parameters will be optimized to specific extracts to acquire the mass profiles.

A workshop on ‘Innate immunity of invertebrates’

Report on the organisation of a workshop-Linked to WP6 activities

Establishment of microbial community analysis platforms and data analysis pipelines

Intestines of black tiger shrimp will be collected from in-house hatcheries along with rearing water and shrimp feeds (WP1) at BIOTEC. In effort to identify autochthonous population, microbial community analyses will be analyzed in water and feed samples to determine transient bacterial population through environmental and feed conditions. Pasteur will be co-author of this Deliverable.

Model of quality project delivery mechanism developed from lessons learned from SAFE-Aqua

Building on the knowledge sharing and exchange of staffs in SAFE-Aqua, administrative grant officers will be trained and encouraged to apply their acquired skills in future projects they will be involved in to make these projects successful.

Effects of vertebrates PAMPs on protection against infection with arthropods viruses

Similar protocols as in T1.2 will be applied to test potential effects of polyI:C (commercially available) and short 5′-triphosphate-RNA molecules (obtained by in vitro transcription by T7 RNA Polymerase) on protection against viral infections.

A public project website for SAFE-Aqua linked to a web-based project management platform only for partners which can be accessed through the SAFE-Aqua website

A website, containing a password-protected web portal and a publicly accessible domain, will be developed. Its main purpose is to make the project known to the public. A web portal attached to this website will allow internal communication and data and file sharing only among partners.

A workshop on ‘Genomics & Bioinformatics’

A workshop on ‘Genomics & Bioinformatics’

A workshop on ‘Metabolomics and applications in agriculture and food security’

The work from Tasks 1 to 3 will be presented during a workshop. This is also part of the knowledge transfer strategy of SAFE-Aqua (WP6). [All partipants will participate in the organisation of this workshop]

Symposium highlighting the achievements of SAFE-Aqua

At the end of the project, an international symposium highlighting the achievements from SAFE-Aqua will be organised. It will be open to the public (i.e. Regulators, scientists, farmers, feed industry, etc., will be invited).

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Publications

A Novel Full-Length Transcriptome Resource for Black Tiger Shrimp (Penaeus monodon) Developed Using Isoform Sequencing (Iso-Seq)

Author(s): Wirulda Pootakham, Tanaporn Uengwetwanit, Chutima Sonthirod, Kanchana Sittikankaew, Nitsara Karoonuthaisiri
Published in: Frontiers in Marine Science, 7, 2020, ISSN 2296-7745
Publisher: Frontiers
DOI: 10.3389/fmars.2020.00172

Transcriptome analyses reveal the synergistic effects of feeding and eyestalk ablation on ovarian maturation in black tiger shrimp

Author(s): Kanchana Sittikankaew, Wirulda Pootakham, Chutima Sonthirod, Duangjai Sangsrakru, Thippawan Yoocha, Jutatip Khudet, Intawat Nookaew, Umaporn Uawisetwathana, Wanilada Rungrassamee, Nitsara Karoonuthaisiri
Published in: Scientific Reports, 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-60192-2

Comparative Analysis of PacBio and Oxford Nanopore Sequencing Technologies for Transcriptomic Landscape Identification of Penaeus monodon

Author(s): Zulema Udaondo, Kanchana Sittikankaew, Tanaporn Uengwetwanit, Thidathip Wongsurawat, Chutima Sonthirod, Piroon Jenjaroenpun, Wirulda Pootakham, Nitsara Karoonuthaisiri, Intawat Nookaew
Published in: Life, 11/8, 2021, Page(s) 862, ISSN 2075-1729
Publisher: MDPI
DOI: 10.3390/life11080862

Understanding the host-microbe-environment interactions: Intestinal microbiota and transcriptomes of black tiger shrimp Penaeus monodon at different salinity levels

Author(s): Sage Chaiyapechara, Tanaporn Uengwetwanit, Sopacha Arayamethakorn, Phimsucha Bunphimpapha, Metavee Phromson, Waraporn Jangsutthivorawat, Siriporn Tala, Nitsara Karoonuthaisiri, Wanilada Rungrassamee
Published in: Aquaculture, 546, 2022, Page(s) 737371, ISSN 0044-8486
Publisher: Elsevier BV
DOI: 10.1016/j.aquaculture.2021.737371

The stress–immunity axis in shellfish

Author(s): Christopher J. Coates, Kenneth Söderhäll
Published in: Journal of Invertebrate Pathology, 2020, Page(s) 107492, ISSN 0022-2011
Publisher: Academic Press
DOI: 10.1016/j.jip.2020.107492

Optimization of high molecular weight DNA extraction methods in shrimp for a long-read sequencing platform

Author(s): Pacharaporn Angthong, Tanaporn Uengwetwanit, Wirulda Pootakham, Kanchana Sittikankaew, Chutima Sonthirod, Duangjai Sangsrakru, Thippawan Yoocha, Intawat Nookaew, Thidathip Wongsurawat, Piroon Jenjaroenpun, Wanilada Rungrassamee, Nitsara Karoonuthaisiri
Published in: PeerJ, 8, 2020, Page(s) e10340, ISSN 2167-8359
Publisher: PeerJ
DOI: 10.7717/peerj.10340

Polychaete consumption increased prostaglandin biosynthesis in female Penaeus monodon

Author(s): Pacharawan Deenarn, Punsa Tobwor, Vanicha Vichai, Suwanchai Phomklad, Panomkorn Chaitongsakul, Rungnapa Leelatanawit, Wananit Wimuttisuk
Published in: Reproduction, 160/6, 2020, Page(s) 873-885, ISSN 1470-1626
Publisher: Society for Reproduction and Fertility
DOI: 10.1530/rep-20-0217

Multifunctional Roles of Hemocyanins

Author(s): Christopher J. Coates, Elisa M. Costa-Paiva
Published in: Vertebrate and Invertebrate Respiratory Proteins, Lipoproteins and other Body Fluid Proteins, 94, 2020, Page(s) 233-250, ISBN 978-3-030-41768-0
Publisher: Springer International Publishing
DOI: 10.1007/978-3-030-41769-7_9