Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers.
We examined 32 cyanobacterial strains, representative of 11 different genera, for the presence of the highly iterated genomic palindrome, called HIPI, using HIP I extended PCR primers. Cryolysates or cell suspensions, and even single colonies, of Microcystis aeruginosa, strain PCC 7806, yielded PCR...
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ftuhipublicatio:oai:pure.atira.dk:publications/e47c177e-176f-4992-9b99-b19656ee474c 2024-02-04T10:02:41+01:00 Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. Comte, Katia Rippka, Rosmarie Friedl, Thomas Day, John Tandeau de Marsac, Nicole Herdman, Michael 2004 https://pure.uhi.ac.uk/en/publications/e47c177e-176f-4992-9b99-b19656ee474c https://doi.org/10.1127/0029-5035/2004/0079-0293 eng eng info:eu-repo/semantics/restrictedAccess Comte , K , Rippka , R , Friedl , T , Day , J , Tandeau de Marsac , N & Herdman , M 2004 , ' Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. ' , NOVA HEDWIGIA , no. 9 , pp. 293-311 . https://doi.org/10.1127/0029-5035/2004/0079-0293 INTERNAL TRANSCRIBED SPACER DNA GENUS MICROCYSTIS PCR INSERTION SEQUENCES EVOLUTIONARY RELATIONSHIPS RIBOSOMAL-RNA SEQUENCES NORTH- ATLANTIC OCEAN DIVERSITY PROCHLOROCOCCUS article 2004 ftuhipublicatio https://doi.org/10.1127/0029-5035/2004/0079-0293 2024-01-11T23:20:45Z We examined 32 cyanobacterial strains, representative of 11 different genera, for the presence of the highly iterated genomic palindrome, called HIPI, using HIP I extended PCR primers. Cryolysates or cell suspensions, and even single colonies, of Microcystis aeruginosa, strain PCC 7806, yielded PCR products equivalent to those obtained with purified DNA, as judged from the banding patterns obtained by gel electrophoresis. Cryolysates were used for amplification and genotyping of all other strains. Representatives of different genera differed extensively in HIP1-based migration patterns, and the amplification products of axenic cyanobacteria were comparable to those obtained with duplicate, non-axenic strains. In addition, HIPI repeats were present in 11 strains of the species Microcystis aeruginosa and in isolates assignable to Planktothrix agardhii and P. rubescens. Based on available 16S rDNA sequence data and DNA/DNA hybridization results for members of these genera, the differences detected by HIP1-based profiling correlate with the interspecies distinctions between Planktothrix agardhii and P rubescens, and reflect intraspecific diversity for members of Microcystis aeruginosa. Thus, we have confirmed the value of this method for rapid genotyping and verification of presumably identical strains from different culture collections. Article in Journal/Newspaper North Atlantic University of the Highlands and Islands: Research Database of UHI Nova Hedwigia 79 1-2 293 311 |
institution |
Open Polar |
collection |
University of the Highlands and Islands: Research Database of UHI |
op_collection_id |
ftuhipublicatio |
language |
English |
topic |
INTERNAL TRANSCRIBED SPACER DNA GENUS MICROCYSTIS PCR INSERTION SEQUENCES EVOLUTIONARY RELATIONSHIPS RIBOSOMAL-RNA SEQUENCES NORTH- ATLANTIC OCEAN DIVERSITY PROCHLOROCOCCUS |
spellingShingle |
INTERNAL TRANSCRIBED SPACER DNA GENUS MICROCYSTIS PCR INSERTION SEQUENCES EVOLUTIONARY RELATIONSHIPS RIBOSOMAL-RNA SEQUENCES NORTH- ATLANTIC OCEAN DIVERSITY PROCHLOROCOCCUS Comte, Katia Rippka, Rosmarie Friedl, Thomas Day, John Tandeau de Marsac, Nicole Herdman, Michael Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
topic_facet |
INTERNAL TRANSCRIBED SPACER DNA GENUS MICROCYSTIS PCR INSERTION SEQUENCES EVOLUTIONARY RELATIONSHIPS RIBOSOMAL-RNA SEQUENCES NORTH- ATLANTIC OCEAN DIVERSITY PROCHLOROCOCCUS |
description |
We examined 32 cyanobacterial strains, representative of 11 different genera, for the presence of the highly iterated genomic palindrome, called HIPI, using HIP I extended PCR primers. Cryolysates or cell suspensions, and even single colonies, of Microcystis aeruginosa, strain PCC 7806, yielded PCR products equivalent to those obtained with purified DNA, as judged from the banding patterns obtained by gel electrophoresis. Cryolysates were used for amplification and genotyping of all other strains. Representatives of different genera differed extensively in HIP1-based migration patterns, and the amplification products of axenic cyanobacteria were comparable to those obtained with duplicate, non-axenic strains. In addition, HIPI repeats were present in 11 strains of the species Microcystis aeruginosa and in isolates assignable to Planktothrix agardhii and P. rubescens. Based on available 16S rDNA sequence data and DNA/DNA hybridization results for members of these genera, the differences detected by HIP1-based profiling correlate with the interspecies distinctions between Planktothrix agardhii and P rubescens, and reflect intraspecific diversity for members of Microcystis aeruginosa. Thus, we have confirmed the value of this method for rapid genotyping and verification of presumably identical strains from different culture collections. |
format |
Article in Journal/Newspaper |
author |
Comte, Katia Rippka, Rosmarie Friedl, Thomas Day, John Tandeau de Marsac, Nicole Herdman, Michael |
author_facet |
Comte, Katia Rippka, Rosmarie Friedl, Thomas Day, John Tandeau de Marsac, Nicole Herdman, Michael |
author_sort |
Comte, Katia |
title |
Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
title_short |
Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
title_full |
Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
title_fullStr |
Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
title_full_unstemmed |
Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. |
title_sort |
assessment of genotypic identity of cyanobacterial strains in culture collections using hip1-based primers. |
publishDate |
2004 |
url |
https://pure.uhi.ac.uk/en/publications/e47c177e-176f-4992-9b99-b19656ee474c https://doi.org/10.1127/0029-5035/2004/0079-0293 |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_source |
Comte , K , Rippka , R , Friedl , T , Day , J , Tandeau de Marsac , N & Herdman , M 2004 , ' Assessment of genotypic identity of cyanobacterial strains in culture collections using HIP1-based primers. ' , NOVA HEDWIGIA , no. 9 , pp. 293-311 . https://doi.org/10.1127/0029-5035/2004/0079-0293 |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.1127/0029-5035/2004/0079-0293 |
container_title |
Nova Hedwigia |
container_volume |
79 |
container_issue |
1-2 |
container_start_page |
293 |
op_container_end_page |
311 |
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1789969551158411264 |