# Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139

Annelies Haegeman, Yoika Foucart, Kris de Jonghe, Thomas Goedefroit, Maher Al Rwahnih, Neil Boonham, Thierry Candresse, Yahya Z A Gaafar, Oscar P Hurtado-Gonzales, Zala Kogej Zwitter, et al.

► To cite this version:

Annelies Haegeman, Yoika Foucart, Kris de Jonghe, Thomas Goedefroit, Maher Al Rwahnih, et al. Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139. Plants, 2024, 13 (5), pp.623. 10.3390/plants13050623. [https://doi.org/10.3390/plants13050623](https://doi.org/10.3390/plants13050623). [hal-04617460](https://HAL.inrae.fr/hal-04617460)

HAL Id: hal-04617460

https://hal.inrae.fr/hal-04617460

Submitted on 19 Jun 2024

HAL is a multi-disciplinary open access
archive for the deposit and dissemination of sci-
entific research documents, whether they are pub-
lished or not. The documents may come from
teaching and research institutions in France or
abroad, or from public or private research centers.

L'archive ouverte pluridisciplinaire HAL, est
destinée au dépôt et à la diffusion de documents
scientifiques de niveau recherche, publiés ou non,
émanant des établissements d'enseignement et de
recherche français ou étrangers, des laboratoires
publics ou privés.

<figure><img src="image_1.png" /></figure>

Distributed under a Creative Commons Attribution 4.0 International License
# Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139

Annelies Haegeman, Yoika Foucart, Kris de Jonghe, Thomas Goedefroit, Maher Al Rwahnih, Neil Boonham, Thierry Candresse, Yahya Z A Gaafar, Oscar P Hurtado-Gonzales, Zala Kogej Zwitter, et al.

► To cite this version:

Annelies Haegeman, Yoika Foucart, Kris de Jonghe, Thomas Goedefroit, Maher Al Rwahnih, et al. Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139. Plants, 2024, 13 (5), pp.623. 10.3390/plants13050623. [https://doi.org/10.3390/plants13050623](https://doi.org/10.3390/plants13050623). [hal-04617460](https://HAL.inrae.fr/hal-04617460v1)

HAL Id: hal-04617460

https://hal.inrae.fr/hal-04617460v1

Submitted on 19 Jun 2024

HAL is a multi-disciplinary open access
archive for the deposit and dissemination of sci-
entific research documents, whether they are pub-
lished or not. The documents may come from
teaching and research institutions in France or
abroad, or from public or private research centers.

L'archive ouverte pluridisciplinaire HAL, est
destinée au dépôt et à la diffusion de documents
scientifiques de niveau recherche, publiés ou non,
émanant des établissements d'enseignement et de
recherche français ou étrangers, des laboratoires
publics ou privés.

<figure><img src="image_1.png" /></figure>
**Title**

Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139.

**Permalink**

https://escholarship.org/uc/item/7s47993s

**Journal**

Plants, 13(5)

**ISSN**

2223-7747

**Authors**

Haegeman, Annelies
Foucart, Yoika
De Jonghe, Kris
et al.

**Publication Date**

2024-02-24

**DOI**

10.3390/plants13050623

Peer reviewed
**Title**

Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. Plants 2023, 12, 2139.

**Permalink**

https://escholarship.org/uc/item/7s47993s

**Journal**

Plants, 13(5)

**ISSN**

2223-7747

**Authors**

Haegeman, Annelies
Foucart, Yoika
De Jonghe, Kris
et al.

**Publication Date**

2024-02-24

**DOI**

10.3390/plants13050623

Peer reviewed
Correction

# Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* 2023, *12*, 2139

Annelies Haegeman <fnref n="1" />,* ¹D, Yoika Foucart <fnref n="1" />, Kris De Jonghe ¹D, Thomas Goedefroit <fnref n="1" />, Maher Al Rwahnih ²D, Neil Boonham <fnref n="3" />, Thierry Candresse ⁴D, Yahya Z. A. Gaafar ⁵D, Oscar P. Hurtado-Gonzales ⁶D, Zala Kogej Zwitter <fnref n="7" />,⁸D, Denis Kutnjak ⁷D, Janja Lamovšek <fnref n="9" />, Marie Lefebvre <fnref n="4" />, Martha Malapi <fnref n="10" />, Irena Mavrič Pleško <fnref n="9" />, Serkan Önder ¹¹D, Jean-Sébastien Reynard ¹²D, Ferran Salavert Pamblanco <fnref n="3" />, Olivier Schumpp ¹²D, Kristian Stevens <fnref n="2" />, Chandan Pal <fnref n="13" />, Lucie Tamisier ¹⁴D, Çiğdem Ulubaş Serçe ¹⁵D, Inge van Duivenbode <fnref n="16" />, David W. Waite ¹⁷D, Xiaojun Hu <fnref n="6" />, Heiko Ziebell ¹⁸D and Sébastien Massart <fnref n="19" />,*

<figure><img src="image_2.png" /></figure>

check for
updates

**Citation:** Haegeman, A.; Foucart, Y.; De Jonghe, K.; Goedefroit, T.; Al Rwahnih, M.; Boonham, N.; Candresse, T.; Gaafar, Y.Z.A.; Hurtado-Gonzales, O.P.; Kogej Zwitter, Z.; et al. Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* 2023, *12*, 2139. *Plants* 2024, *13*, 623. https://doi.org/10.3390/plants13050623

Received: 27 November 2023
Accepted: 18 January 2024
Published: 24 February 2024

<figure><img src="image_3.png" /></figure>

**Copyright:** © 2024 by the authors.
Licensee MDPI, Basel, Switzerland.
This article is an open access article
distributed under the terms and
conditions of the Creative Commons
Attribution (CC BY) license (https://
creativecommons.org/licenses/by/
4.0/).

<footnote n="1">¹ Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), 9820 Merelbeke, Belgium; yoika.foucart@ilvo.vlaanderen.be (Y.F.); kris.dejonghe@ilvo.vlaanderen.be (K.D.J.); thomas.goedefroit@ilvo.vlaanderen.be (T.G.)</footnote>

<footnote n="2">² Foundation Plant Services, Department of Plant Pathology, University of California, Davis, CA 95616, USA; malrwahnih@ucdavis.edu (M.A.R.); kastevens@ucdavis.edu (K.S.)</footnote>

<footnote n="3">³ School of Natural and Environmental Sciences, Newcastle University, Newcastle Upon Tyne NE1 7RU, UK; neil.boonham@newcastle.ac.uk (N.B.); f.salavert2@newcastle.ac.uk (F.S.P.)</footnote>

<footnote n="4">⁴ UMR 1332 Biologie du Fruit et Pathologie, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE), Université de Bordeaux, 33882 Villenave-d'Ornon, France; thierry.candresse@inrae.fr (T.C.); marie.lefebvre@inrae.fr (M.L.)</footnote>

<footnote n="5">⁵ Centre for Plant Health, Canadian Food Inspection Agency, 8801 East Saanich Road, North Saanich, BC V8L 1H3, Canada; yahya.gaafar@inspection.gc.ca</footnote>

<footnote n="6">⁶ Plant Germplasm Quarantine Program, Animal and Plant Health Inspection Service, United States Department of Agriculture (USDA-APHIS), Beltsville, ML 20705, USA; oscar.hurtado-gonzales@usda.gov (O.P.H.-G.); xiaojun.hu@usda.gov (X.H.)</footnote>

<footnote n="7">⁷ Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), 1000 Ljubljana, Slovenia; zala.kogej@nib.si (Z.K.Z.); denis.kutnjak@nib.si (D.K.)</footnote>

<footnote n="8">⁸ Jožef Stefan International Postgraduate School, 1000 Ljubljana, Slovenia</footnote>

<footnote n="9">⁹ Plant Protection Department, Agricultural Institute of Slovenia (KIS), 1000 Ljubljana, Slovenia; janja.lamovsek@kis.si (J.L.); irena.mavricplesko@kis.si (I.M.P.)</footnote>

<footnote n="10">¹⁰ Biotechnology Risk Analysis Program, Animal and Plant Health Inspection Service, United States Department of Agriculture (USDA-APHIS), Riverdale, ML 20737, USA; martha.malapi@usda.gov</footnote>

<footnote n="11">¹¹ Department of Plant Protection, Faculty of Agriculture, Eskişehir Osmangazi University, Odunpazarı, Eskişehir 26160, Turkey; onderserkan@gmail.com</footnote>

<footnote n="12">¹² Department of Plant Protection, Agroscope, 1260 Nyon, Switzerland; jean-sebastien.reynard@agroscope.admin.ch (J.-S.R.); olivier.schumpp@agroscope.admin.ch (O.S.)</footnote>

<footnote n="13">¹³ Zespri International Limited, 400 Maunganui Road, Mount Maunganui 3116, New Zealand; chandanbaar143@yahoo.com</footnote>

<footnote n="14">¹⁴ Unités GAFL et Pathologie Végétale, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE), 84143 Montfavet, France; lucie.tamisier@inrae.fr</footnote>

<footnote n="15">¹⁵ Department of Plant Production and Technologies, Faculty of Agricultural Sciences and Technologies, Niğde Ömer Halisdemir University, Niğde 51240, Turkey; culubas@gmail.com</footnote>

<footnote n="16">¹⁶ Dutch General Inspection Service for Agricultural Seed and Seed Potatoes (NAK), Randweg 14, 8304 AS Emmeloord, The Netherlands; i.vanduivenbode@nak.nl</footnote>

<footnote n="17">¹⁷ Plant Health and Environment Laboratory, Ministry for Primary Industries, Auckland 1140, New Zealand; david.waite@mpi.govt.nz</footnote>

<footnote n="18">¹⁸ Institute for Epidemiology and Pathogen Diagnostics, Federal Research Centre for Cultivated Plants, Julius Kühn Institute (JKI), Messeweg 11-12, 38104 Braunschweig, Germany; heiko.ziebell@julius-kuehn.de</footnote>

<footnote n="19">¹⁹ Plant Pathology Laboratory, University of Liège, Gembloux Agro-Bio Tech, TERRA, 5030 Gembloux, Belgium
* Correspondence: annelies.haegeman@ilvo.vlaanderen.be (A.H.); sebastien.massart@uliege.be (S.M.)</footnote>
Correction

# Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* 2023, *12*, 2139

Annelies Haegeman <fnref n="1" />,* ¹D, Yoika Foucart <fnref n="1" />, Kris De Jonghe ¹D, Thomas Goedefroit <fnref n="1" />, Maher Al Rwahnih ²D, Neil Boonham <fnref n="3" />, Thierry Candresse ⁴D, Yahya Z. A. Gaafar ⁵D, Oscar P. Hurtado-Gonzales ⁶D, Zala Kogej Zwitter <fnref n="7" />,⁸D, Denis Kutnjak ⁷D, Janja Lamovšek <fnref n="9" />, Marie Lefebvre <fnref n="4" />, Martha Malapi <fnref n="10" />, Irena Mavrič Pleško <fnref n="9" />, Serkan Önder ¹¹D, Jean-Sébastien Reynard ¹²D, Ferran Salavert Pamblanco <fnref n="3" />, Olivier Schumpp ¹²D, Kristian Stevens <fnref n="2" />, Chandan Pal <fnref n="13" />, Lucie Tamisier ¹⁴D, Çiğdem Ulubaş Serçe ¹⁵D, Inge van Duivenbode <fnref n="16" />, David W. Waite ¹⁷D, Xiaojun Hu <fnref n="6" />, Heiko Ziebell ¹⁸D and Sébastien Massart <fnref n="19" />,*

<figure><img src="image_2.png" /></figure>

check for
updates

**Citation:** Haegeman, A.; Foucart, Y.; De Jonghe, K.; Goedefroit, T.; Al Rwahnih, M.; Boonham, N.; Candresse, T.; Gaafar, Y.Z.A.; Hurtado-Gonzales, O.P.; Kogej Zwitter, Z.; et al. Correction: Haegeman et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* 2023, *12*, 2139. *Plants* 2024, *13*, 623. https://doi.org/10.3390/plants13050623

Received: 27 November 2023
Accepted: 18 January 2024
Published: 24 February 2024

<figure><img src="image_3.png" /></figure>

**Copyright:** © 2024 by the authors.
Licensee MDPI, Basel, Switzerland.
This article is an open access article
distributed under the terms and
conditions of the Creative Commons
Attribution (CC BY) license (https://
creativecommons.org/licenses/by/
4.0/).

<footnote n="1">¹ Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food (ILVO), 9820 Merelbeke, Belgium; yoika.foucart@ilvo.vlaanderen.be (Y.F.); kris.dejonghe@ilvo.vlaanderen.be (K.D.J.); thomas.goedefroit@ilvo.vlaanderen.be (T.G.)</footnote>

<footnote n="2">² Foundation Plant Services, Department of Plant Pathology, University of California, Davis, CA 95616, USA; malrwahnih@ucdavis.edu (M.A.R.); kastevens@ucdavis.edu (K.S.)</footnote>

<footnote n="3">³ School of Natural and Environmental Sciences, Newcastle University, Newcastle Upon Tyne NE1 7RU, UK; neil.boonham@newcastle.ac.uk (N.B.); f.salavert2@newcastle.ac.uk (F.S.P.)</footnote>

<footnote n="4">⁴ UMR 1332 Biologie du Fruit et Pathologie, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE), Université de Bordeaux, 33882 Villenave-d'Ornon, France; thierry.candresse@inrae.fr (T.C.); marie.lefebvre@inrae.fr (M.L.)</footnote>

<footnote n="5">⁵ Centre for Plant Health, Canadian Food Inspection Agency, 8801 East Saanich Road, North Saanich, BC V8L 1H3, Canada; yahya.gaafar@inspection.gc.ca</footnote>

<footnote n="6">⁶ Plant Germplasm Quarantine Program, Animal and Plant Health Inspection Service, United States Department of Agriculture (USDA-APHIS), Beltsville, ML 20705, USA; oscar.hurtado-gonzales@usda.gov (O.P.H.-G.); xiaojun.hu@usda.gov (X.H.)</footnote>

<footnote n="7">⁷ Department of Biotechnology and Systems Biology, National Institute of Biology (NIB), 1000 Ljubljana, Slovenia; zala.kogej@nib.si (Z.K.Z.); denis.kutnjak@nib.si (D.K.)</footnote>

<footnote n="8">⁸ Jožef Stefan International Postgraduate School, 1000 Ljubljana, Slovenia</footnote>

<footnote n="9">⁹ Plant Protection Department, Agricultural Institute of Slovenia (KIS), 1000 Ljubljana, Slovenia; janja.lamovsek@kis.si (J.L.); irena.mavricplesko@kis.si (I.M.P.)</footnote>

<footnote n="10">¹⁰ Biotechnology Risk Analysis Program, Animal and Plant Health Inspection Service, United States Department of Agriculture (USDA-APHIS), Riverdale, ML 20737, USA; martha.malapi@usda.gov</footnote>

<footnote n="11">¹¹ Department of Plant Protection, Faculty of Agriculture, Eskişehir Osmangazi University, Odunpazarı, Eskişehir 26160, Turkey; onderserkan@gmail.com</footnote>

<footnote n="12">¹² Department of Plant Protection, Agroscope, 1260 Nyon, Switzerland; jean-sebastien.reynard@agroscope.admin.ch (J.-S.R.); olivier.schumpp@agroscope.admin.ch (O.S.)</footnote>

<footnote n="13">¹³ Zespri International Limited, 400 Maunganui Road, Mount Maunganui 3116, New Zealand; chandanbaar143@yahoo.com</footnote>

<footnote n="14">¹⁴ Unités GAFL et Pathologie Végétale, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement (INRAE), 84143 Montfavet, France; lucie.tamisier@inrae.fr</footnote>

<footnote n="15">¹⁵ Department of Plant Production and Technologies, Faculty of Agricultural Sciences and Technologies, Niğde Ömer Halisdemir University, Niğde 51240, Turkey; culubas@gmail.com</footnote>

<footnote n="16">¹⁶ Dutch General Inspection Service for Agricultural Seed and Seed Potatoes (NAK), Randweg 14, 8304 AS Emmeloord, The Netherlands; i.vanduivenbode@nak.nl</footnote>

<footnote n="17">¹⁷ Plant Health and Environment Laboratory, Ministry for Primary Industries, Auckland 1140, New Zealand; david.waite@mpi.govt.nz</footnote>

<footnote n="18">¹⁸ Institute for Epidemiology and Pathogen Diagnostics, Federal Research Centre for Cultivated Plants, Julius Kühn Institute (JKI), Messeweg 11-12, 38104 Braunschweig, Germany; heiko.ziebell@julius-kuehn.de</footnote>

<footnote n="19">¹⁹ Plant Pathology Laboratory, University of Liège, Gembloux Agro-Bio Tech, TERRA, 5030 Gembloux, Belgium
* Correspondence: annelies.haegeman@ilvo.vlaanderen.be (A.H.); sebastien.massart@uliege.be (S.M.)</footnote>
In the original publication [1], there were two mistakes in Figure 3 as published. The legend showed the wrong descriptions with the colors, and the Y-axis scale was not correctly labeled. The corrected Figure 3 with an adjusted description appears below.

<figure><img src="image_4.png" /><figcaption>**Figure 3.** Overview of the proportion of reads (in reads per million) assigned by Kraken2 to different broad organismal categories (fungi, insects, bacteria, spiders and mites, oomycetes, phytoplasmas, and nematodes) for the 37 selected datasets.</figcaption></figure>

The authors state that the scientific conclusions are unaffected. This correction was approved by the Academic Editor. The original publication has also been updated.

**Reference**

1. Haegeman, A.; Foucart, Y.; De Jonghe, K.; Goedefroit, T.; Al Rwahnih, M.; Boonham, N.; Candresse, T.; Gaafar, Y.Z.A.; Hurtado-Gonzales, O.P.; Kogej Zwitter, Z.; et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* 2023, *12*, 2139. [CrossRef] [PubMed]

**Disclaimer/Publisher's Note:** The statements, opinions and data contained in all publications are solely those of the individual author(s) and contributor(s) and not of MDPI and/or the editor(s). MDPI and/or the editor(s) disclaim responsibility for any injury to people or property resulting from any ideas, methods, instructions or products referred to in the content.
In the original publication [1], there were two mistakes in Figure 3 as published. The legend showed the wrong descriptions with the colors, and the Y-axis scale was not correctly labeled. The corrected Figure 3 with an adjusted description appears below.

<figure><img src="image_4.png" /><figcaption>**Figure 3.** Overview of the proportion of reads (in reads per million) assigned by Kraken2 to different broad organismal categories (fungi, insects, bacteria, spiders and mites, oomycetes, phytoplasmas, and nematodes) for the 37 selected datasets.</figcaption></figure>

The authors state that the scientific conclusions are unaffected. This correction was approved by the Academic Editor. The original publication has also been updated.

**Reference**

1. Haegeman, A.; Foucart, Y.; De Jonghe, K.; Goedefroit, T.; Al Rwahnih, M.; Boonham, N.; Candresse, T.; Gaafar, Y.Z.A.; Hurtado-Gonzales, O.P.; Kogej Zwitter, Z.; et al. Looking beyond Virus Detection in RNA Sequencing Data: Lessons Learned from a Community-Based Effort to Detect Cellular Plant Pathogens and Pests. *Plants* **2023**, *12*, 2139. [CrossRef] [PubMed]

**Disclaimer/Publisher's Note:** The statements, opinions and data contained in all publications are solely those of the individual author(s) and contributor(s) and not of MDPI and/or the editor(s). MDPI and/or the editor(s) disclaim responsibility for any injury to people or property resulting from any ideas, methods, instructions or products referred to in the content.