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De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia
Lichen is a symbiotic organism that exists as a single composite body consisting of a mycobiont (fungus) and a photobiont (algae or a cyanobacterium). Many lichen species are considered as extremophiles due to their tolerance to radiation, desiccation, temperature and pollution. However, not all lic...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6141494/ https://www.ncbi.nlm.nih.gov/pubmed/30229114 http://dx.doi.org/10.1016/j.dib.2018.07.020 |
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author | Bharudin, Izwan Abdul Rahim, Siti NurhaniAbdul Abu Bakar, Mohd FaizalAbu Ibrahim, Siti Norsaidah Kamaruddin, Shazilah Latif, Mohd Talib Samsudin, Mohd Wahid Abdul Murad, Abdul Munir Abu Bakar, Farah DibaAbu |
author_facet | Bharudin, Izwan Abdul Rahim, Siti NurhaniAbdul Abu Bakar, Mohd FaizalAbu Ibrahim, Siti Norsaidah Kamaruddin, Shazilah Latif, Mohd Talib Samsudin, Mohd Wahid Abdul Murad, Abdul Munir Abu Bakar, Farah DibaAbu |
author_sort | Bharudin, Izwan |
collection | PubMed |
description | Lichen is a symbiotic organism that exists as a single composite body consisting of a mycobiont (fungus) and a photobiont (algae or a cyanobacterium). Many lichen species are considered as extremophiles due to their tolerance to radiation, desiccation, temperature and pollution. However, not all lichen species are tolerant to harsh environmental conditions as several species are sensitive for example to nitrogen, sulphur, acidity, heavy metals, halogens (e.g. fluoride) and ozone. Thus, to better understand why some lichens can withstand exposure to pollutants as opposed to those that are susceptible, we focused on the lichen species of Dirinaria known for their wide distribution in the tropics, subtropics and pantropical, and moderate tolerance to air pollution. Their moderate tolerance to air pollution affords them to thrive in good air quality environments as well as polluted air environments. Lichen samples of Dirinaria sp., UKM-J1 and UKM-K1, were respectively collected from two areas with different levels of air quality based on Air Pollutant Index or API (with index pollutant criteria of PM(10), carbon monoxide, ozone, nitrogen dioxide and sulfur dioxide) in the outskirt of Jerantut (UKM-J1), a rural area in the middle of Peninsular Malaysia and the township of Klang (UKM-K1), in a busy area of the Klang Valley, Malaysia. API was monitored throughout 2012–2013 whereby the sample collection site in Klang showed markedly higher concentrations of pollutants in all the index pollutant criteria as compared to that of Jerantut. We performed transcriptome sequencing using Illumina RNA-seq technology and de novo assembly of the transcripts from the lichen samples. Raw reads from both libraries were deposited in the NCBI database with the accession number SRP138994. |
format | Online Article Text |
id | pubmed-6141494 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-61414942018-09-18 De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia Bharudin, Izwan Abdul Rahim, Siti NurhaniAbdul Abu Bakar, Mohd FaizalAbu Ibrahim, Siti Norsaidah Kamaruddin, Shazilah Latif, Mohd Talib Samsudin, Mohd Wahid Abdul Murad, Abdul Munir Abu Bakar, Farah DibaAbu Data Brief Environmental Science Lichen is a symbiotic organism that exists as a single composite body consisting of a mycobiont (fungus) and a photobiont (algae or a cyanobacterium). Many lichen species are considered as extremophiles due to their tolerance to radiation, desiccation, temperature and pollution. However, not all lichen species are tolerant to harsh environmental conditions as several species are sensitive for example to nitrogen, sulphur, acidity, heavy metals, halogens (e.g. fluoride) and ozone. Thus, to better understand why some lichens can withstand exposure to pollutants as opposed to those that are susceptible, we focused on the lichen species of Dirinaria known for their wide distribution in the tropics, subtropics and pantropical, and moderate tolerance to air pollution. Their moderate tolerance to air pollution affords them to thrive in good air quality environments as well as polluted air environments. Lichen samples of Dirinaria sp., UKM-J1 and UKM-K1, were respectively collected from two areas with different levels of air quality based on Air Pollutant Index or API (with index pollutant criteria of PM(10), carbon monoxide, ozone, nitrogen dioxide and sulfur dioxide) in the outskirt of Jerantut (UKM-J1), a rural area in the middle of Peninsular Malaysia and the township of Klang (UKM-K1), in a busy area of the Klang Valley, Malaysia. API was monitored throughout 2012–2013 whereby the sample collection site in Klang showed markedly higher concentrations of pollutants in all the index pollutant criteria as compared to that of Jerantut. We performed transcriptome sequencing using Illumina RNA-seq technology and de novo assembly of the transcripts from the lichen samples. Raw reads from both libraries were deposited in the NCBI database with the accession number SRP138994. Elsevier 2018-07-10 /pmc/articles/PMC6141494/ /pubmed/30229114 http://dx.doi.org/10.1016/j.dib.2018.07.020 Text en © 2018 The Authors http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Environmental Science Bharudin, Izwan Abdul Rahim, Siti NurhaniAbdul Abu Bakar, Mohd FaizalAbu Ibrahim, Siti Norsaidah Kamaruddin, Shazilah Latif, Mohd Talib Samsudin, Mohd Wahid Abdul Murad, Abdul Munir Abu Bakar, Farah DibaAbu De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title | De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title_full | De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title_fullStr | De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title_full_unstemmed | De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title_short | De novo transcriptome resources of the lichens, Dirinaria sp. UKM-J1 and UKM-K1 collected from Jerantut and Klang, Malaysia |
title_sort | de novo transcriptome resources of the lichens, dirinaria sp. ukm-j1 and ukm-k1 collected from jerantut and klang, malaysia |
topic | Environmental Science |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6141494/ https://www.ncbi.nlm.nih.gov/pubmed/30229114 http://dx.doi.org/10.1016/j.dib.2018.07.020 |
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