Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus

Publikation: Beitrag in FachzeitschriftArtikelForschungPeer-Review

Autorschaft

  • Sophie Richter
  • Sabine Kind
  • Thomas Wolfgang Oberhänsli
  • Michael Schneider
  • Natalia Nenasheva
  • Katharina Hoff
  • Jens Keilwagen
  • Il Kweon Yeon
  • Vincent Philion
  • Shigeki Moriya
  • Henryk Flachowsky
  • Andrea Patocchi
  • Thomas Wolfgang Wöhner

Externe Organisationen

  • Julius Kühn-Institut (JKI) Bundesforschungsinstitut für Kulturpflanzen
  • Forschungsinstitut für biologischen Landbau (FiBL)
  • Universität Greifswald
  • Gyeongsangbuk-do Agricultural Research and Extension Services (GBARES)
  • Research and Development Institute for the Agri-Environment (IRDA)
  • National Agricultural Research Centers Japan
  • Agroscope
Forschungs-netzwerk anzeigen

Details

OriginalspracheEnglisch
Aufsatznummer1437132
Seitenumfang16
FachzeitschriftFrontiers in Plant Science
Jahrgang15
PublikationsstatusVeröffentlicht - 18 Okt. 2024
Extern publiziertJa

Abstract

Diplocarpon coronariae is a fungal pathogen that is prevalent in low-input apple production. Over the past 15 years, it has become increasingly distributed in Europe. However, comprehensive insights into its biology and pathogenicity remain limited. One particular aspect is the rarity of the sexual morph of this pathogen, a phenomenon hitherto unobserved in Europe. Diplocarpon coronariae reproduces through a heterothallic mating system requiring at least two different mating types for sexual reproduction. Genes determining the mating types are located on the mating-type locus. In this study, D. coronariae strain DC1_JKI from Dresden, Germany, was sequenced and used to unravel the structure of the mating type locus. Using short-read and long-read sequencing methods, the first gapless and near-complete telomere-to-telomere genome assembly of D. coronariae was achieved. The assembled genome spans 51.2 Mbp and comprises 21 chromosome-scale contigs of high completeness. The generated genome sequence was used to in silico elucidate the structure of the mating-type locus, identified as MAT1-2. Furthermore, an examination of MAT1-1 and MAT1-2 frequency across a diverse set of samples sourced from Europe and Asia revealed the exclusive presence of MAT1-2 in European samples, whereas both MAT loci were present in Asian counterparts. Our findings suggest an explanation for the absence of the sexual morph, potentially linked to the absence of the second mating idiomorph of D. coronariae in European apple orchards.

ASJC Scopus Sachgebiete

Zitieren

Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus. / Richter, Sophie; Kind, Sabine; Oberhänsli, Thomas Wolfgang et al.
in: Frontiers in Plant Science, Jahrgang 15, 1437132, 18.10.2024.

Publikation: Beitrag in FachzeitschriftArtikelForschungPeer-Review

Richter, S, Kind, S, Oberhänsli, TW, Schneider, M, Nenasheva, N, Hoff, K, Keilwagen, J, Yeon, IK, Philion, V, Moriya, S, Flachowsky, H, Patocchi, A & Wöhner, TW 2024, 'Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus', Frontiers in Plant Science, Jg. 15, 1437132. https://doi.org/10.3389/fpls.2024.1437132
Richter, S., Kind, S., Oberhänsli, T. W., Schneider, M., Nenasheva, N., Hoff, K., Keilwagen, J., Yeon, I. K., Philion, V., Moriya, S., Flachowsky, H., Patocchi, A., & Wöhner, T. W. (2024). Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus. Frontiers in Plant Science, 15, Artikel 1437132. https://doi.org/10.3389/fpls.2024.1437132
Richter S, Kind S, Oberhänsli TW, Schneider M, Nenasheva N, Hoff K et al. Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus. Frontiers in Plant Science. 2024 Okt 18;15:1437132. doi: 10.3389/fpls.2024.1437132
Richter, Sophie ; Kind, Sabine ; Oberhänsli, Thomas Wolfgang et al. / Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus. in: Frontiers in Plant Science. 2024 ; Jahrgang 15.
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title = "Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus",
abstract = "Diplocarpon coronariae is a fungal pathogen that is prevalent in low-input apple production. Over the past 15 years, it has become increasingly distributed in Europe. However, comprehensive insights into its biology and pathogenicity remain limited. One particular aspect is the rarity of the sexual morph of this pathogen, a phenomenon hitherto unobserved in Europe. Diplocarpon coronariae reproduces through a heterothallic mating system requiring at least two different mating types for sexual reproduction. Genes determining the mating types are located on the mating-type locus. In this study, D. coronariae strain DC1_JKI from Dresden, Germany, was sequenced and used to unravel the structure of the mating type locus. Using short-read and long-read sequencing methods, the first gapless and near-complete telomere-to-telomere genome assembly of D. coronariae was achieved. The assembled genome spans 51.2 Mbp and comprises 21 chromosome-scale contigs of high completeness. The generated genome sequence was used to in silico elucidate the structure of the mating-type locus, identified as MAT1-2. Furthermore, an examination of MAT1-1 and MAT1-2 frequency across a diverse set of samples sourced from Europe and Asia revealed the exclusive presence of MAT1-2 in European samples, whereas both MAT loci were present in Asian counterparts. Our findings suggest an explanation for the absence of the sexual morph, potentially linked to the absence of the second mating idiomorph of D. coronariae in European apple orchards.",
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T1 - Genome sequence of a European Diplocarpon coronariae strain and in silico structure of the mating-type locus

AU - Richter, Sophie

AU - Kind, Sabine

AU - Oberhänsli, Thomas Wolfgang

AU - Schneider, Michael

AU - Nenasheva, Natalia

AU - Hoff, Katharina

AU - Keilwagen, Jens

AU - Yeon, Il Kweon

AU - Philion, Vincent

AU - Moriya, Shigeki

AU - Flachowsky, Henryk

AU - Patocchi, Andrea

AU - Wöhner, Thomas Wolfgang

N1 - Publisher Copyright: Copyright © 2024 Richter, Kind, Oberhänsli, Schneider, Nenasheva, Hoff, Keilwagen, Yeon, Philion, Moriya, Flachowsky, Patocchi and Wöhner.

PY - 2024/10/18

Y1 - 2024/10/18

N2 - Diplocarpon coronariae is a fungal pathogen that is prevalent in low-input apple production. Over the past 15 years, it has become increasingly distributed in Europe. However, comprehensive insights into its biology and pathogenicity remain limited. One particular aspect is the rarity of the sexual morph of this pathogen, a phenomenon hitherto unobserved in Europe. Diplocarpon coronariae reproduces through a heterothallic mating system requiring at least two different mating types for sexual reproduction. Genes determining the mating types are located on the mating-type locus. In this study, D. coronariae strain DC1_JKI from Dresden, Germany, was sequenced and used to unravel the structure of the mating type locus. Using short-read and long-read sequencing methods, the first gapless and near-complete telomere-to-telomere genome assembly of D. coronariae was achieved. The assembled genome spans 51.2 Mbp and comprises 21 chromosome-scale contigs of high completeness. The generated genome sequence was used to in silico elucidate the structure of the mating-type locus, identified as MAT1-2. Furthermore, an examination of MAT1-1 and MAT1-2 frequency across a diverse set of samples sourced from Europe and Asia revealed the exclusive presence of MAT1-2 in European samples, whereas both MAT loci were present in Asian counterparts. Our findings suggest an explanation for the absence of the sexual morph, potentially linked to the absence of the second mating idiomorph of D. coronariae in European apple orchards.

AB - Diplocarpon coronariae is a fungal pathogen that is prevalent in low-input apple production. Over the past 15 years, it has become increasingly distributed in Europe. However, comprehensive insights into its biology and pathogenicity remain limited. One particular aspect is the rarity of the sexual morph of this pathogen, a phenomenon hitherto unobserved in Europe. Diplocarpon coronariae reproduces through a heterothallic mating system requiring at least two different mating types for sexual reproduction. Genes determining the mating types are located on the mating-type locus. In this study, D. coronariae strain DC1_JKI from Dresden, Germany, was sequenced and used to unravel the structure of the mating type locus. Using short-read and long-read sequencing methods, the first gapless and near-complete telomere-to-telomere genome assembly of D. coronariae was achieved. The assembled genome spans 51.2 Mbp and comprises 21 chromosome-scale contigs of high completeness. The generated genome sequence was used to in silico elucidate the structure of the mating-type locus, identified as MAT1-2. Furthermore, an examination of MAT1-1 and MAT1-2 frequency across a diverse set of samples sourced from Europe and Asia revealed the exclusive presence of MAT1-2 in European samples, whereas both MAT loci were present in Asian counterparts. Our findings suggest an explanation for the absence of the sexual morph, potentially linked to the absence of the second mating idiomorph of D. coronariae in European apple orchards.

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KW - D. coronariae

KW - genome sequence

KW - long reads

KW - Malus

KW - mating types

KW - short reads

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U2 - 10.3389/fpls.2024.1437132

DO - 10.3389/fpls.2024.1437132

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AN - SCOPUS:85208580391

VL - 15

JO - Frontiers in Plant Science

JF - Frontiers in Plant Science

SN - 1664-462X

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ER -