Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment

The existence of archival collections of macroinvertebrates opens the possibility of using these organisms as biological indicators and model organisms for developing indices of aquatic ecosystem health and stress, which provide a powerful basis for sustainable environmental monitoring and managemen...

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Autores principales:	Valerija Begić, Mirela Sertić Perić, Suzana Hančić, Mihaela Štargl, Matea Svoboda, Petra Korać, Ines Radanović
Formato:	article
Lenguaje:	EN
Publicado:	Elsevier 2021
Materias:	Fixative Monitoring Urbanization DNA and RNA isolation Protein detection Ecology QH540-549.5
Acceso en línea:	https://doaj.org/article/173f9e7fdb49427382afbada160e0e87
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id	oai:doaj.org-article:173f9e7fdb49427382afbada160e0e87
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spelling	oai:doaj.org-article:173f9e7fdb49427382afbada160e0e872021-12-01T04:47:35ZEstimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment1470-160X10.1016/j.ecolind.2021.107509https://doaj.org/article/173f9e7fdb49427382afbada160e0e872021-06-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S1470160X21001746https://doaj.org/toc/1470-160XThe existence of archival collections of macroinvertebrates opens the possibility of using these organisms as biological indicators and model organisms for developing indices of aquatic ecosystem health and stress, which provide a powerful basis for sustainable environmental monitoring and management of water resources. The environmental assessment of urbanization influence on urban stream biota over time can include molecular (proteomic, transcriptomic and genomic) analyses of aquatic insects isolated from archive samples. These analyses could include confirmation of detected species by barcoding, determination of the changes in the expression of specific genes and detection of changes in signaling pathways in cells of the studied organisms. Since the preservation of the organisms’ macromolecules (DNA, RNA and proteins) is a prerequisite for the implementation of molecular methods, the aim of this study was to assess the quality of macromolecule preservation within archival samples of aquatic macroinvertebrates collected in urban streams during last 28 years. Results indicated that the optimal way for archive storage is 3.6% formaldehyde solution if they have a purpose of morphological assessment or protein analyses, and in absolute ethanol for nucleic acids evaluation. Furthermore, it is of great importance that samples are treated with fixative in situ and processed in a laboratory as soon as possible.Valerija BegićMirela Sertić PerićSuzana HančićMihaela ŠtarglMatea SvobodaPetra KoraćInes RadanovićElsevierarticleFixativeMonitoringUrbanizationDNA and RNA isolationProtein detectionEcologyQH540-549.5ENEcological Indicators, Vol 125, Iss , Pp 107509- (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Fixative Monitoring Urbanization DNA and RNA isolation Protein detection Ecology QH540-549.5
spellingShingle	Fixative Monitoring Urbanization DNA and RNA isolation Protein detection Ecology QH540-549.5 Valerija Begić Mirela Sertić Perić Suzana Hančić Mihaela Štargl Matea Svoboda Petra Korać Ines Radanović Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
description	The existence of archival collections of macroinvertebrates opens the possibility of using these organisms as biological indicators and model organisms for developing indices of aquatic ecosystem health and stress, which provide a powerful basis for sustainable environmental monitoring and management of water resources. The environmental assessment of urbanization influence on urban stream biota over time can include molecular (proteomic, transcriptomic and genomic) analyses of aquatic insects isolated from archive samples. These analyses could include confirmation of detected species by barcoding, determination of the changes in the expression of specific genes and detection of changes in signaling pathways in cells of the studied organisms. Since the preservation of the organisms’ macromolecules (DNA, RNA and proteins) is a prerequisite for the implementation of molecular methods, the aim of this study was to assess the quality of macromolecule preservation within archival samples of aquatic macroinvertebrates collected in urban streams during last 28 years. Results indicated that the optimal way for archive storage is 3.6% formaldehyde solution if they have a purpose of morphological assessment or protein analyses, and in absolute ethanol for nucleic acids evaluation. Furthermore, it is of great importance that samples are treated with fixative in situ and processed in a laboratory as soon as possible.
format	article
author	Valerija Begić Mirela Sertić Perić Suzana Hančić Mihaela Štargl Matea Svoboda Petra Korać Ines Radanović
author_facet	Valerija Begić Mirela Sertić Perić Suzana Hančić Mihaela Štargl Matea Svoboda Petra Korać Ines Radanović
author_sort	Valerija Begić
title	Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
title_short	Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
title_full	Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
title_fullStr	Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
title_full_unstemmed	Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
title_sort	estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment
publisher	Elsevier
publishDate	2021
url	https://doaj.org/article/173f9e7fdb49427382afbada160e0e87
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Estimating quality of archive urban stream macroinvertebrate samples for genomic, transcriptomic and proteomic assessment

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