Icelandic accession of Arabidopsis thaliana confirmed with
cytogenetic markers and its origin inferred from whole-genome
sequencing

J 2017

Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing

MANDÁKOVÁ, Terezie; Hjortur THORBJORNSSON; Rahul PISUPATI; Ilka REICHARDT; Martin LYSÁK et al.

Základní údaje

Originální název

Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing

Autoři

MANDÁKOVÁ, Terezie; Hjortur THORBJORNSSON; Rahul PISUPATI; Ilka REICHARDT; Martin LYSÁK a Kesara ANAMTHAWAT-JONSSON

Vydání

ICELANDIC AGRICULTURAL SCIENCES, REYKJAVIK, RANNSOKNASTOFNUN LANDBUNADARINS, 2017, 1670-567X

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10611 Plant sciences, botany

Stát vydavatele

Island

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 0.364

Označené pro přenos do RIV

Ano

Kód RIV

RIV/00216224:14740/17:00098205

Organizační jednotka

Středoevropský technologický institut

Klíčová slova anglicky

Brassicaceae; chromosome painting; comparative cytogenomics; geothermal soil; meiosis; ribosomal FISH; paracentric inversion; SNPmatch

Štítky

rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 1. 3. 2018 14:29, Mgr. Pavla Foltynová, Ph.D.

Anotace

V originále

In this paper, we report the first discovery of Arabidopsis thaliana in Iceland. In May 2015, the plants were located growing on warm geothermal soil around the hot spring Deildartunguhver in Reykholt, West Iceland. Flower buds and leaves were collected and used for subsequent cytogenetic analyses and DNA sequencing. Whole plant specimens were deposited at the Icelandic AMNH herbarium and were assigned accession number VA21379. The accession was found to be diploid with 2n=2x=10, as expected for this species. At meiosis I (diakinesis) it formed five normal bivalents. Ribosomal FISH mapping revealed two pairs of 5S rDNA loci and two pairs of NORs. Fine-scale chromosome painting using BAC clones specific for chromosomes At1 and At4 confirmed the standard structure of these chromosomes. Furthermore, the painting revealed an absence of the 1.17-Mb paracentric inversion on the At4 short arm in the Icelandic accession, in contrast to the inversion-bearing A. thaliana accessions more prevalent in North America. The sequencing of multiplexed whole-genome libraries identified the Swedish accession Ham-1 as the closest relative of the Icelandic accession, with, however, a markedly low SNPmatch score. We conclude that although the Icelandic accession appears to be more genetically related to populations from Scandinavia than to other European accessions, it did not originate from any of the populations represented in the global collection of the 1001 Genomes accessions of A. thaliana.

Citovat

MANDÁKOVÁ, Terezie; Hjortur THORBJORNSSON; Rahul PISUPATI; Ilka REICHARDT; Martin LYSÁK a Kesara ANAMTHAWAT-JONSSON. Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing. ICELANDIC AGRICULTURAL SCIENCES. REYKJAVIK: RANNSOKNASTOFNUN LANDBUNADARINS, 2017, roč. 30, č. 2017, s. 29-38. ISSN 1670-567X. Dostupné z: https://doi.org/10.16886/IAS.2017.03.

@article{1395007,
   author = {Mandáková, Terezie and Thorbjornsson, Hjortur and Pisupati, Rahul and Reichardt, Ilka and Lysák, Martin and AnamthawatandJonsson, Kesara},
   article_location = {REYKJAVIK},
   article_number = {2017},
   doi = {https://doi.org/10.16886/IAS.2017.03},
   keywords = {Brassicaceae; chromosome painting; comparative cytogenomics; geothermal soil; meiosis; ribosomal FISH; paracentric inversion; SNPmatch},
   language = {eng},
   issn = {1670-567X},
   journal = {ICELANDIC AGRICULTURAL SCIENCES},
   title = {Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing},
   url = {http://www.ias.is/landbunadur/wgsamvef.nsf/Attachment/IAS%202017%203%20Mandakova%20ofl/$file/IAS%202017%203%20Mandakova%20ofl.pdf},
   volume = {30},
   year = {2017}
}

TY  - JOUR
ID  - 1395007
AU  - Mandáková, Terezie - Thorbjornsson, Hjortur - Pisupati, Rahul - Reichardt, Ilka - Lysák, Martin - Anamthawat-Jonsson, Kesara
PY  - 2017
TI  - Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing
JF  - ICELANDIC AGRICULTURAL SCIENCES
VL  - 30
IS  - 2017
SP  - 29-38
EP  - 29-38
PB  - RANNSOKNASTOFNUN LANDBUNADARINS
SN  - 1670567X
KW  - Brassicaceae
KW  - chromosome painting
KW  - comparative cytogenomics
KW  - geothermal soil
KW  - meiosis
KW  - ribosomal FISH
KW  - paracentric inversion
KW  - SNPmatch
UR  - http://www.ias.is/landbunadur/wgsamvef.nsf/Attachment/IAS%202017%203%20Mandakova%20ofl/$file/IAS%202017%203%20Mandakova%20ofl.pdf
L2  - http://www.ias.is/landbunadur/wgsamvef.nsf/Attachment/IAS%202017%203%20Mandakova%20ofl/$file/IAS%202017%203%20Mandakova%20ofl.pdf
N2  - In this paper, we report the first discovery of Arabidopsis thaliana in Iceland. In May 2015, the plants were located growing on warm geothermal soil around the hot spring Deildartunguhver in Reykholt, West Iceland. Flower buds and leaves were collected and used for subsequent cytogenetic analyses and DNA sequencing. Whole plant specimens were deposited at the Icelandic AMNH herbarium and were assigned accession number VA21379. The accession was found to be diploid with 2n=2x=10, as expected for this species. At meiosis I (diakinesis) it formed five normal bivalents. Ribosomal FISH mapping revealed two pairs of 5S rDNA loci and two pairs of NORs. Fine-scale chromosome painting using BAC clones specific for chromosomes At1 and At4 confirmed the standard structure of these chromosomes. Furthermore, the painting revealed an absence of the 1.17-Mb paracentric inversion on the At4 short arm in the Icelandic accession, in contrast to the inversion-bearing A. thaliana accessions more prevalent in North America. The sequencing of multiplexed whole-genome libraries identified the Swedish accession Ham-1 as the closest relative of the Icelandic accession, with, however, a markedly low SNPmatch score. We conclude that although the Icelandic accession appears to be more genetically related to populations from Scandinavia than to other European accessions, it did not originate from any of the populations represented in the global collection of the 1001 Genomes accessions of A. thaliana.
ER  -

MANDÁKOVÁ, Terezie; Hjortur THORBJORNSSON; Rahul PISUPATI; Ilka REICHARDT; Martin LYSÁK a Kesara ANAMTHAWAT-JONSSON. Icelandic accession of Arabidopsis thaliana confirmed with cytogenetic markers and its origin inferred from whole-genome sequencing. \textit{ICELANDIC AGRICULTURAL SCIENCES}. REYKJAVIK: RANNSOKNASTOFNUN LANDBUNADARINS, 2017, roč.~30, č.~2017, s.~29-38. ISSN~1670-567X. Dostupné z: https://doi.org/10.16886/IAS.2017.03.

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