Supplementary material 4 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Supplementary material 1 from: Rosenblad MA, Martín MP, Tedersoo L, Ryberg M, Larsson E, Wurzbacher C, Abarenkov K, Nilsson RH (2016) Detection of signal recognition particle (SRP) RNAs in the nuclear ribosomal internal transcribed spacer 1 (ITS1) of three lineages of ectomycorrhizal fungi (Agaricomycetes, Basidiomycota). MycoKeys 13: 21-33. https://doi.org/10.3897/mycokeys.13.8579

Alm Rosenblad, Magnus
Martín, María P.
Tedersoo, Leho
Ryberg, Martin K.
Larsson, Ellen
Wurzbacher, Christian
Abarenkov, Kessy
Nilsson, R. Henrik

May 2016

Output from cmsearch and primers used : Explanation note: A) The output from cmsearch showing ...

Supplementary material 1 from: Shumskaya M, Lorusso N, Patel U, Leigh M, Somervuo P, Schigel D (2023) MycoPins: a metabarcoding-based method to monitor fungal colonization of fine woody debris. MycoKeys 96: 77-95. https://doi.org/10.3897/mycokeys.96.101033

Shumskaya, Maria
Lorusso, Nicholas
Patel, Urvi
Leigh, Madison
Somervuo, Panu
Schigel, Dmitry

March 2023

Sequences of the primers used in the experiment and ITS2 fragment amplified from DNA extracted from ...

Figure 1 from: Riit T, Tedersoo L, Drenkhan R, Runno-Paurson E, Kokko H, Anslan S (2018) Corrigendum for: "Oomycete-specific ITS primers for identification and metabarcoding" published in MycoKeys, doi: 10.3897/mycokeys.14.9244. MycoKeys 41: 119-120. https://doi.org/10.3897/mycokeys.41.30558

Riit, Taavi
Tedersoo, Leho
Drenkhan, Rein
Runno-Paurson, Eve
Kokko, Harri
Anslan, Sten

November 2018

Figure 1 A Map of universal and oomycete-specific ITS region primers B Taxa with mismatches in the b...

Supplementary material 5 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Table S5. Data set of the ITS2 barcode.: Explanation note: Data set of the ITS2 barcode

Supplementary material 6 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Table S6. Data set of the LSU D1, D2, and D3 barcodes.: Explanation note: Data set of the LSU D1, D2...

Figure 7 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 7 - Differences in sequence length in the ITS1 and ITS2 barcodes of 16 most abundant fungal c...

Figure 2 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 2 - Sample-based OTU richness as recovered by different barcode-primer pair combinations. Err...

Figure 4 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 4 - Relationship between connectance and adjusted coefficient of determination (R2adj) for fl...

Figure 1 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 1 - Map of ribosomal DNA indicating variable regions as well as primers used and/or discussed...

Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Rapid development of high-throughput (HTS) molecular identification methods has revolutionized our k...

Comparison and validation of some ITS primer pairs useful for fungal metabarcoding studies

Op De Beeck, Michiel
Lievens, Bart
Busschaert, Pieter
Declerck, Stéphan
Vangronsveld, Jaco
Colpaert, Jan V

June 2014

Current metabarcoding studies aiming to characterize microbial communities generally rely on the amp...

Filtered sequencing data (MOTUs) for fungal metabarcode

Pansu, Johan
Winkworth, Richard C.
Hennion, Françoise
Gielly, Ludovic
Taberlet, Pierre
Choler, Philippe

July 2015

This table contains filtered MOTUs for the fungal metabarcode. Amplicons were amplified using ITS5 :...

Comparison and Validation of Some ITS Primer Pairs Useful for Fungal Metabarcoding Studies

Michiel Op De Beeck (578438)
Bart Lievens (147571)
Pieter Busschaert (578439)
Stéphan Declerck (578440)
Jaco Vangronsveld (198587)
Jan V. Colpaert (578441)

June 2014

<div><p>Current metabarcoding studies aiming to characterize microbial communities generally rely on...

Supplementary material 3 from: Ceballos-Escalera A, Richards J, Arias MB, Inward DJG, Vogler AP (2022) Metabarcoding of insect-associated fungal communities: a comparison of internal transcribed spacer (ITS) and large-subunit (LSU) rRNA markers. MycoKeys 88: 1-33. https://doi.org/10.3897/mycokeys.88.77106

Ceballos-Escalera, Angelina
Richards, John
Arias, Maria Belen
Inward, Daegan J. G.
Vogler, Alfried P.

March 2022

Figure S3. Maximum-likelihood tree constructed in IQ-Tree2 based on three-gene (LSU D1-D2, SSU, ITS2...

Comparison and validation of some ITS primer pairs useful for fungal metabarcoding studies.

Michiel Op De Beeck
Bart Lievens
Pieter Busschaert
Stéphan Declerck
Jaco Vangronsveld
Jan V Colpaert

Current metabarcoding studies aiming to characterize microbial communities generally rely on the amp...

Supplementary material 1 from: Rosenblad MA, Martín MP, Tedersoo L, Ryberg M, Larsson E, Wurzbacher C, Abarenkov K, Nilsson RH (2016) Detection of signal recognition particle (SRP) RNAs in the nuclear ribosomal internal transcribed spacer 1 (ITS1) of three lineages of ectomycorrhizal fungi (Agaricomycetes, Basidiomycota). MycoKeys 13: 21-33. https://doi.org/10.3897/mycokeys.13.8579

Alm Rosenblad, Magnus
Martín, María P.
Tedersoo, Leho
Ryberg, Martin K.
Larsson, Ellen
Wurzbacher, Christian
Abarenkov, Kessy
Nilsson, R. Henrik

May 2016

Output from cmsearch and primers used : Explanation note: A) The output from cmsearch showing ...

Supplementary material 1 from: Shumskaya M, Lorusso N, Patel U, Leigh M, Somervuo P, Schigel D (2023) MycoPins: a metabarcoding-based method to monitor fungal colonization of fine woody debris. MycoKeys 96: 77-95. https://doi.org/10.3897/mycokeys.96.101033

Shumskaya, Maria
Lorusso, Nicholas
Patel, Urvi
Leigh, Madison
Somervuo, Panu
Schigel, Dmitry

March 2023

Sequences of the primers used in the experiment and ITS2 fragment amplified from DNA extracted from ...

Figure 1 from: Riit T, Tedersoo L, Drenkhan R, Runno-Paurson E, Kokko H, Anslan S (2018) Corrigendum for: "Oomycete-specific ITS primers for identification and metabarcoding" published in MycoKeys, doi: 10.3897/mycokeys.14.9244. MycoKeys 41: 119-120. https://doi.org/10.3897/mycokeys.41.30558

Riit, Taavi
Tedersoo, Leho
Drenkhan, Rein
Runno-Paurson, Eve
Kokko, Harri
Anslan, Sten

November 2018

Figure 1 A Map of universal and oomycete-specific ITS region primers B Taxa with mismatches in the b...

Supplementary material 5 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Table S5. Data set of the ITS2 barcode.: Explanation note: Data set of the ITS2 barcode

Supplementary material 6 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Table S6. Data set of the LSU D1, D2, and D3 barcodes.: Explanation note: Data set of the LSU D1, D2...

Figure 7 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 7 - Differences in sequence length in the ITS1 and ITS2 barcodes of 16 most abundant fungal c...

Figure 2 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 2 - Sample-based OTU richness as recovered by different barcode-primer pair combinations. Err...

Figure 4 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 4 - Relationship between connectance and adjusted coefficient of determination (R2adj) for fl...

Figure 1 from: Tedersoo L, Anslan S, Bahram M, Põlme S, Riit T, Liiv I, Kõljalg U, Kisand V, Nilsson RH, Hildebrand F, Bork P, Abarenkov K (2015) Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi. MycoKeys 10: 1-43. https://doi.org/10.3897/mycokeys.10.4852

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Figure 1 - Map of ribosomal DNA indicating variable regions as well as primers used and/or discussed...

Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi

Tedersoo, Leho
Anslan, Sten
Bahram, Mohammad
Põlme, Sergei
Riit, Taavi
Liiv, Ingrid
Kõljalg, Urmas
Kisand, Veljo
Nilsson, Henrik
Hildebrand, Falk
Bork, Peer
Abarenkov, Kessy

May 2015

Rapid development of high-throughput (HTS) molecular identification methods has revolutionized our k...

Comparison and validation of some ITS primer pairs useful for fungal metabarcoding studies

Op De Beeck, Michiel
Lievens, Bart
Busschaert, Pieter
Declerck, Stéphan
Vangronsveld, Jaco
Colpaert, Jan V

June 2014

Current metabarcoding studies aiming to characterize microbial communities generally rely on the amp...

Filtered sequencing data (MOTUs) for fungal metabarcode

Pansu, Johan
Winkworth, Richard C.
Hennion, Françoise
Gielly, Ludovic
Taberlet, Pierre
Choler, Philippe

July 2015

This table contains filtered MOTUs for the fungal metabarcode. Amplicons were amplified using ITS5 :...

Comparison and Validation of Some ITS Primer Pairs Useful for Fungal Metabarcoding Studies

Michiel Op De Beeck (578438)
Bart Lievens (147571)
Pieter Busschaert (578439)
Stéphan Declerck (578440)
Jaco Vangronsveld (198587)
Jan V. Colpaert (578441)

June 2014

<div><p>Current metabarcoding studies aiming to characterize microbial communities generally rely on...

Supplementary material 3 from: Ceballos-Escalera A, Richards J, Arias MB, Inward DJG, Vogler AP (2022) Metabarcoding of insect-associated fungal communities: a comparison of internal transcribed spacer (ITS) and large-subunit (LSU) rRNA markers. MycoKeys 88: 1-33. https://doi.org/10.3897/mycokeys.88.77106

Ceballos-Escalera, Angelina
Richards, John
Arias, Maria Belen
Inward, Daegan J. G.
Vogler, Alfried P.

March 2022

Figure S3. Maximum-likelihood tree constructed in IQ-Tree2 based on three-gene (LSU D1-D2, SSU, ITS2...

Comparison and validation of some ITS primer pairs useful for fungal metabarcoding studies.

Michiel Op De Beeck
Bart Lievens
Pieter Busschaert
Stéphan Declerck
Jaco Vangronsveld
Jan V Colpaert

Current metabarcoding studies aiming to characterize microbial communities generally rely on the amp...

Supplementary material 1 from: Rosenblad MA, Martín MP, Tedersoo L, Ryberg M, Larsson E, Wurzbacher C, Abarenkov K, Nilsson RH (2016) Detection of signal recognition particle (SRP) RNAs in the nuclear ribosomal internal transcribed spacer 1 (ITS1) of three lineages of ectomycorrhizal fungi (Agaricomycetes, Basidiomycota). MycoKeys 13: 21-33. https://doi.org/10.3897/mycokeys.13.8579

Alm Rosenblad, Magnus
Martín, María P.
Tedersoo, Leho
Ryberg, Martin K.
Larsson, Ellen
Wurzbacher, Christian
Abarenkov, Kessy
Nilsson, R. Henrik

May 2016

Output from cmsearch and primers used : Explanation note: A) The output from cmsearch showing ...

Supplementary material 1 from: Shumskaya M, Lorusso N, Patel U, Leigh M, Somervuo P, Schigel D (2023) MycoPins: a metabarcoding-based method to monitor fungal colonization of fine woody debris. MycoKeys 96: 77-95. https://doi.org/10.3897/mycokeys.96.101033

Shumskaya, Maria
Lorusso, Nicholas
Patel, Urvi
Leigh, Madison
Somervuo, Panu
Schigel, Dmitry

March 2023

Sequences of the primers used in the experiment and ITS2 fragment amplified from DNA extracted from ...

Figure 1 from: Riit T, Tedersoo L, Drenkhan R, Runno-Paurson E, Kokko H, Anslan S (2018) Corrigendum for: "Oomycete-specific ITS primers for identification and metabarcoding" published in MycoKeys, doi: 10.3897/mycokeys.14.9244. MycoKeys 41: 119-120. https://doi.org/10.3897/mycokeys.41.30558

Riit, Taavi
Tedersoo, Leho
Drenkhan, Rein
Runno-Paurson, Eve
Kokko, Harri
Anslan, Sten

November 2018

Figure 1 A Map of universal and oomycete-specific ITS region primers B Taxa with mismatches in the b...

Abstract

Extracted data

Abstract

Extracted data

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