Sedimentary DNA versus morphology in the analysis of diatom-environment relationships
The Arctic treeline ecotone is characterised by a steep vegetation gradient from arctic tundra to northern taiga forests, which is thought to influence the water chemistry of thermokarst lakes in this region. Environmentally sensitive diatoms respond to such ecological changes in terms of variation...
Published in: | Journal of Paleolimnology |
---|---|
Main Authors: | , , , |
Format: | Article in Journal/Newspaper |
Language: | unknown |
Published: |
SPRINGER
2016
|
Subjects: | |
Online Access: | https://epic.awi.de/id/eprint/42247/ https://epic.awi.de/id/eprint/42247/1/Dulias_2016_JOPL.pdf https://hdl.handle.net/10013/epic.49009 https://hdl.handle.net/10013/epic.49009.d001 |
id |
ftawi:oai:epic.awi.de:42247 |
---|---|
record_format |
openpolar |
spelling |
ftawi:oai:epic.awi.de:42247 2024-09-15T18:38:36+00:00 Sedimentary DNA versus morphology in the analysis of diatom-environment relationships Dulias, Katharina Stoof-Leichsenring, Kathleen R Pestryakova, Luidmila A. Herzschuh, Ulrike 2016-11-15 application/pdf https://epic.awi.de/id/eprint/42247/ https://epic.awi.de/id/eprint/42247/1/Dulias_2016_JOPL.pdf https://hdl.handle.net/10013/epic.49009 https://hdl.handle.net/10013/epic.49009.d001 unknown SPRINGER https://epic.awi.de/id/eprint/42247/1/Dulias_2016_JOPL.pdf https://hdl.handle.net/10013/epic.49009.d001 Dulias, K. , Stoof-Leichsenring, K. R. orcid:0000-0002-6609-3217 , Pestryakova, L. A. and Herzschuh, U. orcid:0000-0003-0999-1261 (2016) Sedimentary DNA versus morphology in the analysis of diatom-environment relationships , Journal of Paleolimnology . doi:10.1007/s10933-016-9926-y <https://doi.org/10.1007/s10933-016-9926-y> , hdl:10013/epic.49009 EPIC3Journal of Paleolimnology, SPRINGER, ISSN: 0921-2728 Article isiRev 2016 ftawi https://doi.org/10.1007/s10933-016-9926-y 2024-06-24T04:15:36Z The Arctic treeline ecotone is characterised by a steep vegetation gradient from arctic tundra to northern taiga forests, which is thought to influence the water chemistry of thermokarst lakes in this region. Environmentally sensitive diatoms respond to such ecological changes in terms of variation in diatom diversity and richness, which so far has only been documented by microscopic surveys. We applied next-generation sequencing to analyse the diatom composition of lake sediment DNA extracted from 32 lakes across the treeline in the Katanga region, Siberia, using a short fragment of the rbcL chloroplast gene as a genetic barcode. We compared diatom richness and diversity obtained from the genetic approach with diatom counts from traditional microscopic analysis. Both datasets were employed to investigate diversity and relationships with environmental variables, using ordination methods. Aftereffective filtering of the raw data, the two methods gave similar results for diatom richness and composition at the genus level (DNA 12 taxa; morphology 19 taxa), even though there was a much higher absolute number of sequences obtained per genetic sample (median 50,278), compared with microscopic counts (median 426). Dissolved organic carbon explained the highest percentage of variance in both datasets (14.2 % DNA; 18.7 % morphology), reflecting the compositional turnover of diatom assemblages along the tundra-taiga transition. Differences between the two approaches are mostly a consequence of the filtering process of genetic data and limitations of genetic references in the database, which restricted the determination of genetically identified sequence types to the genus level. The morphological approach, however, allowed identifications mostly to species level, which permits better ecological interpretation of the diatom data. Nevertheless, because of a rapidly increasing reference database, the genetic approach with sediment DNA will, in the future, enable reliable investigations of diatom composition from lake ... Article in Journal/Newspaper taiga Thermokarst Tundra Siberia Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) Journal of Paleolimnology 57 1 51 66 |
institution |
Open Polar |
collection |
Alfred Wegener Institute for Polar- and Marine Research (AWI): ePIC (electronic Publication Information Center) |
op_collection_id |
ftawi |
language |
unknown |
description |
The Arctic treeline ecotone is characterised by a steep vegetation gradient from arctic tundra to northern taiga forests, which is thought to influence the water chemistry of thermokarst lakes in this region. Environmentally sensitive diatoms respond to such ecological changes in terms of variation in diatom diversity and richness, which so far has only been documented by microscopic surveys. We applied next-generation sequencing to analyse the diatom composition of lake sediment DNA extracted from 32 lakes across the treeline in the Katanga region, Siberia, using a short fragment of the rbcL chloroplast gene as a genetic barcode. We compared diatom richness and diversity obtained from the genetic approach with diatom counts from traditional microscopic analysis. Both datasets were employed to investigate diversity and relationships with environmental variables, using ordination methods. Aftereffective filtering of the raw data, the two methods gave similar results for diatom richness and composition at the genus level (DNA 12 taxa; morphology 19 taxa), even though there was a much higher absolute number of sequences obtained per genetic sample (median 50,278), compared with microscopic counts (median 426). Dissolved organic carbon explained the highest percentage of variance in both datasets (14.2 % DNA; 18.7 % morphology), reflecting the compositional turnover of diatom assemblages along the tundra-taiga transition. Differences between the two approaches are mostly a consequence of the filtering process of genetic data and limitations of genetic references in the database, which restricted the determination of genetically identified sequence types to the genus level. The morphological approach, however, allowed identifications mostly to species level, which permits better ecological interpretation of the diatom data. Nevertheless, because of a rapidly increasing reference database, the genetic approach with sediment DNA will, in the future, enable reliable investigations of diatom composition from lake ... |
format |
Article in Journal/Newspaper |
author |
Dulias, Katharina Stoof-Leichsenring, Kathleen R Pestryakova, Luidmila A. Herzschuh, Ulrike |
spellingShingle |
Dulias, Katharina Stoof-Leichsenring, Kathleen R Pestryakova, Luidmila A. Herzschuh, Ulrike Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
author_facet |
Dulias, Katharina Stoof-Leichsenring, Kathleen R Pestryakova, Luidmila A. Herzschuh, Ulrike |
author_sort |
Dulias, Katharina |
title |
Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
title_short |
Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
title_full |
Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
title_fullStr |
Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
title_full_unstemmed |
Sedimentary DNA versus morphology in the analysis of diatom-environment relationships |
title_sort |
sedimentary dna versus morphology in the analysis of diatom-environment relationships |
publisher |
SPRINGER |
publishDate |
2016 |
url |
https://epic.awi.de/id/eprint/42247/ https://epic.awi.de/id/eprint/42247/1/Dulias_2016_JOPL.pdf https://hdl.handle.net/10013/epic.49009 https://hdl.handle.net/10013/epic.49009.d001 |
genre |
taiga Thermokarst Tundra Siberia |
genre_facet |
taiga Thermokarst Tundra Siberia |
op_source |
EPIC3Journal of Paleolimnology, SPRINGER, ISSN: 0921-2728 |
op_relation |
https://epic.awi.de/id/eprint/42247/1/Dulias_2016_JOPL.pdf https://hdl.handle.net/10013/epic.49009.d001 Dulias, K. , Stoof-Leichsenring, K. R. orcid:0000-0002-6609-3217 , Pestryakova, L. A. and Herzschuh, U. orcid:0000-0003-0999-1261 (2016) Sedimentary DNA versus morphology in the analysis of diatom-environment relationships , Journal of Paleolimnology . doi:10.1007/s10933-016-9926-y <https://doi.org/10.1007/s10933-016-9926-y> , hdl:10013/epic.49009 |
op_doi |
https://doi.org/10.1007/s10933-016-9926-y |
container_title |
Journal of Paleolimnology |
container_volume |
57 |
container_issue |
1 |
container_start_page |
51 |
op_container_end_page |
66 |
_version_ |
1810483010781315072 |