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Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change

Dittrichia graveolens (L.) Greuter, or stinkwort, is a weedy annual plant within the family Asteraceae. The species is recognized for the rapid expansion of both its native and introduced ranges: in Europe, it has expanded its native distribution northward from the Mediterranean basin by nearly 7 °C...

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Autores principales: McEvoy, Susan L, Lustenhouwer, Nicky, Melen, Miranda K, Nguyen, Oanh, Marimuthu, Mohan P A, Chumchim, Noravit, Beraut, Eric, Parker, Ingrid M, Meyer, Rachel S
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10445520/
https://www.ncbi.nlm.nih.gov/pubmed/37262429
http://dx.doi.org/10.1093/jhered/esad033
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author McEvoy, Susan L
Lustenhouwer, Nicky
Melen, Miranda K
Nguyen, Oanh
Marimuthu, Mohan P A
Chumchim, Noravit
Beraut, Eric
Parker, Ingrid M
Meyer, Rachel S
author_facet McEvoy, Susan L
Lustenhouwer, Nicky
Melen, Miranda K
Nguyen, Oanh
Marimuthu, Mohan P A
Chumchim, Noravit
Beraut, Eric
Parker, Ingrid M
Meyer, Rachel S
author_sort McEvoy, Susan L
collection PubMed
description Dittrichia graveolens (L.) Greuter, or stinkwort, is a weedy annual plant within the family Asteraceae. The species is recognized for the rapid expansion of both its native and introduced ranges: in Europe, it has expanded its native distribution northward from the Mediterranean basin by nearly 7 °C latitude since the mid-20th century, while in California and Australia the plant is an invasive weed of concern. Here, we present the first de novo D. graveolens genome assembly (1N = 9 chromosomes), including complete chloroplast (151,013 bp) and partial mitochondrial genomes (22,084 bp), created using Pacific Biosciences HiFi reads and Dovetail Omni-C data. The final primary assembly is 835 Mbp in length, of which 98.1% are represented by 9 scaffolds ranging from 66 to 119 Mbp. The contig N50 is 74.9 Mbp and the scaffold N50 is 96.9 Mbp, which, together with a 98.8% completeness based on the BUSCO embryophyta10 database containing 1,614 orthologs, underscores the high quality of this assembly. This pseudo-molecule-scale genome assembly is a valuable resource for our fundamental understanding of the genomic consequences of range expansion under global change, as well as comparative genomic studies in the Asteraceae.
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spelling pubmed-104455202023-08-24 Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change McEvoy, Susan L Lustenhouwer, Nicky Melen, Miranda K Nguyen, Oanh Marimuthu, Mohan P A Chumchim, Noravit Beraut, Eric Parker, Ingrid M Meyer, Rachel S J Hered Genome Resources Dittrichia graveolens (L.) Greuter, or stinkwort, is a weedy annual plant within the family Asteraceae. The species is recognized for the rapid expansion of both its native and introduced ranges: in Europe, it has expanded its native distribution northward from the Mediterranean basin by nearly 7 °C latitude since the mid-20th century, while in California and Australia the plant is an invasive weed of concern. Here, we present the first de novo D. graveolens genome assembly (1N = 9 chromosomes), including complete chloroplast (151,013 bp) and partial mitochondrial genomes (22,084 bp), created using Pacific Biosciences HiFi reads and Dovetail Omni-C data. The final primary assembly is 835 Mbp in length, of which 98.1% are represented by 9 scaffolds ranging from 66 to 119 Mbp. The contig N50 is 74.9 Mbp and the scaffold N50 is 96.9 Mbp, which, together with a 98.8% completeness based on the BUSCO embryophyta10 database containing 1,614 orthologs, underscores the high quality of this assembly. This pseudo-molecule-scale genome assembly is a valuable resource for our fundamental understanding of the genomic consequences of range expansion under global change, as well as comparative genomic studies in the Asteraceae. Oxford University Press 2023-06-01 /pmc/articles/PMC10445520/ /pubmed/37262429 http://dx.doi.org/10.1093/jhered/esad033 Text en © The American Genetic Association. 2023. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Genome Resources
McEvoy, Susan L
Lustenhouwer, Nicky
Melen, Miranda K
Nguyen, Oanh
Marimuthu, Mohan P A
Chumchim, Noravit
Beraut, Eric
Parker, Ingrid M
Meyer, Rachel S
Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title_full Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title_fullStr Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title_full_unstemmed Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title_short Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change
title_sort chromosome-level reference genome of stinkwort, dittrichia graveolens (l.) greuter: a resource for studies on invasion, range expansion, and evolutionary adaptation under global change
topic Genome Resources
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10445520/
https://www.ncbi.nlm.nih.gov/pubmed/37262429
http://dx.doi.org/10.1093/jhered/esad033
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