Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication
Antarctic cyanobacteria biodiversity was investigated by simultaneous sequencing of the nuclear ribosomal internal transcribed spacer (ITS flanked by partial 16S and 23S), and Chloroplast tRNALeu UAA intron (TrnL), exploring whether such morphotypes constitute distinct species and explaining their c...
Published in: | Open Journal of Ecology |
---|---|
Main Authors: | , , , , |
Other Authors: | , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
Scientific Research Publishing
2014
|
Subjects: | |
Online Access: | http://hdl.handle.net/11573/568323 https://doi.org/10.4236/oje.2014.48039 http://www.scirp.org/journal/PaperInformation.aspx?PaperID=46467#.U4j3jnJ_shE |
id |
ftunivromairis:oai:iris.uniroma1.it:11573/568323 |
---|---|
record_format |
openpolar |
spelling |
ftunivromairis:oai:iris.uniroma1.it:11573/568323 2024-02-04T09:53:12+01:00 Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication Carla Micheli Raffaella Paperi Alessandro Belmonte Pushparaj Benjamin CIANCHI, Maria Rossella Carla, Micheli Cianchi, Maria Rossella Raffaella, Paperi Alessandro, Belmonte Pushparaj, Benjamin 2014 ELETTRONICO http://hdl.handle.net/11573/568323 https://doi.org/10.4236/oje.2014.48039 http://www.scirp.org/journal/PaperInformation.aspx?PaperID=46467#.U4j3jnJ_shE eng eng Scientific Research Publishing volume:04 issue:08 firstpage:456 lastpage:467 numberofpages:12 journal:OPEN JOURNAL OF ECOLOGY http://hdl.handle.net/11573/568323 doi:10.4236/oje.2014.48039 http://www.scirp.org/journal/PaperInformation.aspx?PaperID=46467#.U4j3jnJ_shE info:eu-repo/semantics/article 2014 ftunivromairis https://doi.org/10.4236/oje.2014.48039 2024-01-10T17:56:34Z Antarctic cyanobacteria biodiversity was investigated by simultaneous sequencing of the nuclear ribosomal internal transcribed spacer (ITS flanked by partial 16S and 23S), and Chloroplast tRNALeu UAA intron (TrnL), exploring whether such morphotypes constitute distinct species and explaining their current distribution. We identified Nostocales, Chrococcales and Oscillatoriales species, collected in different habitats (soil, algal mats, lake sediments, ice-water) after their growth in cultures. By comparative sequence analyses available in Genbank, our results proved to be mostly in agreement with both TrnL and ITS, in the identification of the strains, particularly for Nostocales. Although ITS demonstrated more usefully than TrnL did in identifying Oscillatoriales and Chroococcales, due to the frequent lack of the intron in these groups, our results lead us to support an independent phylogenetic dataset of ITS and TrnL (the latter based on conserved regions) producing not only concordant clusters but also a secondary structure. Specific assignments of the secondary structure evidenced by different cyanobacteria groups, especially the D1-D1’ region of ITS and the P6b region of TrnL. For the latter region, the sequences analyzed for Nostoc species could be divided into the two classes previously identified, on the basis of different heptanucleotide repeats in P6b Article in Journal/Newspaper Antarc* Antarctic Sapienza Università di Roma: CINECA IRIS Antarctic Open Journal of Ecology 04 08 456 467 |
institution |
Open Polar |
collection |
Sapienza Università di Roma: CINECA IRIS |
op_collection_id |
ftunivromairis |
language |
English |
description |
Antarctic cyanobacteria biodiversity was investigated by simultaneous sequencing of the nuclear ribosomal internal transcribed spacer (ITS flanked by partial 16S and 23S), and Chloroplast tRNALeu UAA intron (TrnL), exploring whether such morphotypes constitute distinct species and explaining their current distribution. We identified Nostocales, Chrococcales and Oscillatoriales species, collected in different habitats (soil, algal mats, lake sediments, ice-water) after their growth in cultures. By comparative sequence analyses available in Genbank, our results proved to be mostly in agreement with both TrnL and ITS, in the identification of the strains, particularly for Nostocales. Although ITS demonstrated more usefully than TrnL did in identifying Oscillatoriales and Chroococcales, due to the frequent lack of the intron in these groups, our results lead us to support an independent phylogenetic dataset of ITS and TrnL (the latter based on conserved regions) producing not only concordant clusters but also a secondary structure. Specific assignments of the secondary structure evidenced by different cyanobacteria groups, especially the D1-D1’ region of ITS and the P6b region of TrnL. For the latter region, the sequences analyzed for Nostoc species could be divided into the two classes previously identified, on the basis of different heptanucleotide repeats in P6b |
author2 |
Carla, Micheli Cianchi, Maria Rossella Raffaella, Paperi Alessandro, Belmonte Pushparaj, Benjamin |
format |
Article in Journal/Newspaper |
author |
Carla Micheli Raffaella Paperi Alessandro Belmonte Pushparaj Benjamin CIANCHI, Maria Rossella |
spellingShingle |
Carla Micheli Raffaella Paperi Alessandro Belmonte Pushparaj Benjamin CIANCHI, Maria Rossella Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
author_facet |
Carla Micheli Raffaella Paperi Alessandro Belmonte Pushparaj Benjamin CIANCHI, Maria Rossella |
author_sort |
Carla Micheli |
title |
Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
title_short |
Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
title_full |
Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
title_fullStr |
Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
title_full_unstemmed |
Antarctic Cyanobacteria Biodiversity Based on ITS and TrnL Sequencing and Its Ecological Implication |
title_sort |
antarctic cyanobacteria biodiversity based on its and trnl sequencing and its ecological implication |
publisher |
Scientific Research Publishing |
publishDate |
2014 |
url |
http://hdl.handle.net/11573/568323 https://doi.org/10.4236/oje.2014.48039 http://www.scirp.org/journal/PaperInformation.aspx?PaperID=46467#.U4j3jnJ_shE |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
volume:04 issue:08 firstpage:456 lastpage:467 numberofpages:12 journal:OPEN JOURNAL OF ECOLOGY http://hdl.handle.net/11573/568323 doi:10.4236/oje.2014.48039 http://www.scirp.org/journal/PaperInformation.aspx?PaperID=46467#.U4j3jnJ_shE |
op_doi |
https://doi.org/10.4236/oje.2014.48039 |
container_title |
Open Journal of Ecology |
container_volume |
04 |
container_issue |
08 |
container_start_page |
456 |
op_container_end_page |
467 |
_version_ |
1789964666512867328 |