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Article ; Online: Agaricus

Nawaz, Rab / Murad, Waheed / Irshad, Muhammad / Callac, Philippe / Hussain, Shah

2024 , Page(s) 1–24

Abstract: ... ...

Abstract	Agaricus
Language	English
Publishing date	2024-04-15
Publishing country	England
Document type	Journal Article
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/00275514.2024.2334473
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Article ; Online: Experimental Outcrossing in

Jalalzadeh, Banafsheh / Barroso, Gérard / Savoie, Jean-Michel / Callac, Philippe

Journal of fungi (Basel, Switzerland)

2022 Volume 8, Issue 12

Abstract: Agaricus bisporus var. bisporus, the button mushroom, has a predominantly pseudohomothallic life cycle. Most of its spores are heterokaryotic and give rise to fertile heterokaryons. However, previous studies have suggested that outcrossing should not be ... ...

Abstract	Agaricus bisporus var. bisporus, the button mushroom, has a predominantly pseudohomothallic life cycle. Most of its spores are heterokaryotic and give rise to fertile heterokaryons. However, previous studies have suggested that outcrossing should not be rare in wild populations. In order to discover how outcrossing occurs, we experimentally favored it between aerial propagules of a fruiting donor mycelium and a delayed receiver mycelium that only invaded culture trays. Two donor/receiver pairs were studied, and potentially hybrid basidiomata collected on the receiver trays were analyzed with a mitochondrial marker, two unlinked nuclear CAPS markers, then haplotype markers based on DNA sequences obtained after PCR cloning of the rDNA ITS region and the fruk gene. For one of the two pairs, most basidiomata were hybrids between the donor and the receiver. Genotyping of the hybrids revealed only two genotypes consistent with outcrossing involving airborne mycelium fragments rather than basidiospores. The resident receiver heterokaryon that provided its mitochondria to the hybrid basidiomata is suspected to have had a trophic contribution to their growth and successful fruiting. The high level of heterozygosity and the cultivar introgression previously revealed in wild populations of this pseudohomothallic species may result from outcrossing involving airborne pieces of mycelium.
Language	English
Publishing date	2022-12-06
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2784229-0
ISSN	2309-608X ; 2309-608X
ISSN (online)	2309-608X
ISSN	2309-608X
DOI	10.3390/jof8121278
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Article ; Online: Insight into the evolutionary and domesticated history of the most widely cultivated mushroom Agaricus bisporus via mitogenome sequences of 361 global strains.

Zhang, Ming-Zhe / Xu, Jian-Ping / Callac, Philippe / Chen, Mei-Yuan / Wu, Qi / Wach, Mark / Mata, Gerardo / Zhao, Rui-Lin

BMC genomics

2023 Volume 24, Issue 1, Page(s) 182

Abstract: Agaricus bisporus is the most widely cultivated edible mushroom in the world with a only around three hundred years known history of cultivation. Therefore, it represents an ideal organism not only to investigate the natural evolutionary history but also ...

Abstract	Agaricus bisporus is the most widely cultivated edible mushroom in the world with a only around three hundred years known history of cultivation. Therefore, it represents an ideal organism not only to investigate the natural evolutionary history but also the understanding on the evolution going back to the early era of domestication. In this study, we generated the mitochondrial genome sequences of 352 A. bisporus strains and 9 strains from 4 closely related species around the world. The population mitogenomic study revealed all A. bisporus strains can be divided into seven clades, and all domesticated cultivars present only in two of those clades. The molecular dating analysis showed this species origin in Europe on 4.6 Ma and we proposed the main dispersal routes. The detailed mitogenome structure studies showed that the insertion of the plasmid-derived dpo gene caused a long fragment (MIR) inversion, and the distributions of the fragments of dpo gene were strictly in correspondence with these seven clades. Our studies also showed A. bisporus population contains 30 intron distribution patterns (IDPs), while all cultivars contain only two IDPs, which clearly exhibit intron loss compared to the others. Either the loss occurred before or after domestication, that could suggest that the change facilitates their adaptation to the cultivated environment.
MeSH term(s)	Genome, Mitochondrial ; Agaricus/genetics ; Europe
Language	English
Publishing date	2023-04-05
Publishing country	England
Document type	Journal Article
ZDB-ID	2041499-7
ISSN	1471-2164 ; 1471-2164
ISSN (online)	1471-2164
ISSN	1471-2164
DOI	10.1186/s12864-023-09257-w
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Article ; Online: Offspring analysis using two cleaved amplified polymorphic sequence (CAPS) markers reveals amphithallism in the edible mushroom

Ling, Zhi-Lin / Wang, Hui-Jun / Callac, Philippe / Zhao, Rui-Lin

Mycologia

2019 Volume 111, Issue 3, Page(s) 384–394

Abstract: ... Agaricus ... ...

Abstract	Agaricus sinodeliciosus
MeSH term(s)	Agaricus/genetics ; Agaricus/physiology ; DNA, Fungal/genetics ; DNA, Intergenic/genetics ; Genetic Markers ; Genotype ; Meiosis ; Metalloendopeptidases/genetics ; Phylogeny ; Spores, Fungal/genetics
Chemical Substances	DNA, Fungal ; DNA, Intergenic ; Genetic Markers ; Metalloendopeptidases (EC 3.4.24.-) ; mitochondrial intermediate peptidase (EC 3.4.24.59)
Language	English
Publishing date	2019-05-14
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/00275514.2019.1599248
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Article: Offspring analysis using two cleaved amplified polymorphic sequence (CAPS) markers reveals amphithallism in the edible mushroom Agaricus sinodeliciosus

Ling, Zhi-Lin / Wang, Hui-Jun / Callac, Philippe / Zhao, Rui-Lin

Mycologia. 2019 May 4, v. 111, no. 3

2019

Abstract: Agaricus sinodeliciosus is an edible wild mushroom known in northwest China. It belongs to Agaricus section Bivelares that includes several popular cultivated species, such as A. bisporus, the button mushroom. The life cycle of the latter species has ... ...

Abstract	Agaricus sinodeliciosus is an edible wild mushroom known in northwest China. It belongs to Agaricus section Bivelares that includes several popular cultivated species, such as A. bisporus, the button mushroom. The life cycle of the latter species has been described as amphithallic because both homokaryotic (n) and heterokaryotic (n+n) spores are produced that lead to heterothallic and pseudohomothallic life cycles, respectively. The type of life cycle can impact population structures and breeding strategies. The main objective of this study was to identify the different categories of spores produced by A. sinodeliciosus. Using either a morphological approach based on the number of sterigmata per basidium or a genetic approach based on the genotypes of the progeny at two loci, the proportion of heterokaryotic spores was estimated at 6% and 15%, respectively. Two codominant markers were chosen from the mitochondrial intermediate peptidase gene (MIP) and the nuc rDNA internal transcribed spacer (ITS1-5.8S-ITS2 = ITS) region. Genotypic analysis and mating tests confirmed that in A. sinodeliciosus, MIP is centromere-linked and tightly linked to the mating type locus as in A. bisporus and A. subrufescens. We conclude that A. sinodeliciosus has a unifactorial system of sexual incompatibility and an amphithallic life cycle that is predominantly heterothallic, and that its pseudohomothallism follows a nonrandom model with nonsister postmeiotic nuclei paired in the same spore, which give rise to a potentially fertile heterokaryon. This method of using two informative markers is reliable not only in selecting the homokaryotic offspring but also in classifying the homokaryons in two breeding stocks according to their mating type alleles.
Keywords	basidia ; heterokaryon ; internal transcribed spacers ; loci ; mitochondria ; models ; mushrooms ; progeny ; spores ; China
Language	English
Dates of publication	2019-0504
Size	p. 384-394.
Publishing place	Taylor & Francis
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/00275514.2019.1599248
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Four new species of

Ling, Zhi-Lin / Zhou, Jun-Liang / Parra, Luis A / De Kesel, André / Callac, Philippe / Cao, Bin / He, Mao-Qiang / Zhao, Rui-Lin

Mycologia

2021 Volume 113, Issue 2, Page(s) 476–491

Abstract: ... ...

Abstract	Agaricus
MeSH term(s)	Agaricus/classification ; Agaricus/genetics ; China ; DNA, Fungal/genetics ; DNA, Ribosomal/genetics ; DNA, Ribosomal Spacer/genetics ; Phylogeny ; Sequence Analysis, DNA ; Spores, Fungal/classification ; Spores, Fungal/genetics
Chemical Substances	DNA, Fungal ; DNA, Ribosomal ; DNA, Ribosomal Spacer
Language	English
Publishing date	2021-02-10
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/00275514.2020.1852808
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Article: Four new species of Agaricus subgenus Spissicaules from China

Ling, Zhi-Lin / Zhou, Jun-Liang / Parra, Luis A / De Kesel, André / Callac, Philippe / Cao, Bin / He, Mao-Qiang / Zhao, Rui-Lin

Mycologia. 2021 Mar. 04, v. 113, no. 2

2021

Abstract: Agaricus subgenus Spissicaules is widely distributed in the world. In this study, 114 specimens were included in multigene phylogenetic analyses that allowed a better circumscription of the four sections in A. subg. Spissicaules. Three new species from ... ...

Abstract	Agaricus subgenus Spissicaules is widely distributed in the world. In this study, 114 specimens were included in multigene phylogenetic analyses that allowed a better circumscription of the four sections in A. subg. Spissicaules. Three new species from China, A. brunneovariabilis, A. beijingensis, and A. planiceps, are described and placed in different sections. The invalidly described A. catenariocystidiosus is validated here as an additional new species. Comparisons between the sequences of the three closely related species A. thiersii, A. parasubrutilescens, and A. linzhiensis support the distinction between these three species despite the paraphyly of A. linzhiensis, which results from its high intraspecific variability with numerous heteromorphisms.
Keywords	Agaricus ; intraspecific variation ; new species ; paraphyly ; China
Language	English
Dates of publication	2021-0304
Size	p. 476-491.
Publishing place	Taylor & Francis
Document type	Article
Note	NAL-AP-2-clean
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/00275514.2020.1852808
Database	NAL-Catalogue (AGRICOLA)

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Article: Patterns of PCR Amplification Artifacts of the Fungal Barcode Marker in a Hybrid Mushroom.

Zhou, Jun-Liang / Xu, Jianping / Jiao, An-Guo / Yang, Li / Chen, Jie / Callac, Philippe / Liu, Yu / Wang, Shou-Xian

Frontiers in microbiology

2019 Volume 10, Page(s) 2686

Abstract: The polymerase chain reaction (PCR) is widely used in modern biology and medicine. However, PCR artifacts can complicate the interpretation of PCR-based results. The internal transcribed spacer (ITS) region of the ribosomal RNA gene cluster is the ... ...

Abstract	The polymerase chain reaction (PCR) is widely used in modern biology and medicine. However, PCR artifacts can complicate the interpretation of PCR-based results. The internal transcribed spacer (ITS) region of the ribosomal RNA gene cluster is the consensus fungal barcode marker and suspected PCR artifacts have been reported in many studies, especially for the analyses of environmental fungal samples. At present, the patterns of PCR artifacts in the whole fungal ITS region (ITS1+5.8S+ITS2) are not known. In this study, we analyzed the error rates of PCR at three template complexity levels using the divergent copies of ITS from the mushroom
Language	English
Publishing date	2019-11-19
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2587354-4
ISSN	1664-302X
ISSN	1664-302X
DOI	10.3389/fmicb.2019.02686
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Article ; Online: An overview of Agaricus section Hondenses and Agaricus section Xanthodermatei with description of eight new species from Pakistan.

Bashir, Hira / Chen, Jie / Jabeen, Sana / Ullah, Sadiq / Khan, Junaid / Niazi, Abdul Rehman / Zhang, Mingzhe / Khalid, Abdul Nasir / Parra, Luis Alberto / Callac, Philippe

Scientific reports

2021 Volume 11, Issue 1, Page(s) 12905

Abstract: In a recent revision of the genus Agaricus, A. section Xanthodermatei was split into two sections A. sect. Hondenses and A. sect. Xanthodermatei. Our objectives were to investigate the species diversity of both sections in Pakistan and to give an ... ...

Abstract	In a recent revision of the genus Agaricus, A. section Xanthodermatei was split into two sections A. sect. Hondenses and A. sect. Xanthodermatei. Our objectives were to investigate the species diversity of both sections in Pakistan and to give an overview of the major clades. Phylogenetic analyses based on the combined nucLSU, ITS and TEF1 dataset from 35 specimens of both sections revealed three major clades. Analyses based on ITS dataset and 106 specimens, including 33 from Pakistan, reveal eight new species and one new record species. These nine species are described in detail. It is noteworthy that intraspecific variability as well as interspecific variability between closely related species were very low in ITS sequences in many cases. In the case of the two new species A. xanthochromaticus and A. griseovariegatus, TEF1 sequence data were much more efficient than ITS to distinguish these species from each other. The other new species are A. atroumbonatus, A. fumidicolor, A. macropeplus, A. parviniveus, A. swaticus and A. bambusetorum. The latter is the only new species of A. sect. Hondenses in which it is morphologically atypical and also the unique (sub)tropical species. Agaricus gregariomyces is recorded for the first time in Pakistan. In addition, brief descriptions are provided not only for A. bisporiticus, A. endoxanthus and A. punjabensis, which are reported again in Pakistan, but also for A. californicus, which is reported for the first time in Spain and outside North America. In total 12 species of both sections were reported in Pakistan and half of them were from subtropical climatic areas, underlining the contribution of the climatic diversity to the high species richness in this country.
MeSH term(s)	Agaricus/classification ; Agaricus/cytology ; Agaricus/genetics ; Agaricus/isolation & purification ; DNA, Ribosomal Spacer ; Genetic Variation ; Pakistan ; Phenotype ; Phylogeny ; Sequence Analysis, DNA
Chemical Substances	DNA, Ribosomal Spacer
Language	English
Publishing date	2021-06-18
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2615211-3
ISSN	2045-2322 ; 2045-2322
ISSN (online)	2045-2322
ISSN	2045-2322
DOI	10.1038/s41598-021-92261-5
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Article: A phylogenetic reconstruction and emendation of Agaricus section Duploannulatae.

Challen, Michael P / Kerrigan, Richard W / Callac, Philippe

Mycologia

2010 Volume 95, Issue 1, Page(s) 61–73

Abstract: Agaricus section Duploannulatae comprises the group of species allied with A. bisporus and A. bitorquis. Disagreement exists in the literature regarding the composition of this group. We used DNA sequence data from the ITS segments of the nuclear ... ...

Abstract	Agaricus section Duploannulatae comprises the group of species allied with A. bisporus and A. bitorquis. Disagreement exists in the literature regarding the composition of this group. We used DNA sequence data from the ITS segments of the nuclear ribosomal DNA region, in a sample of European and North American isolates, to identify characters shared by this group, to further delimit species-level taxa within the section, and to develop a phylogenetic hypothesis. Shared polymorphisms that suggest a natural limit for section Duploannulatae were found. ITS1 data were assessed using parsimony, distance and maximum likelihood methods of phylogeny. The section Duploannulatae comprised six robust clades. Five clades corresponded to well characterized species from the temperate Northern Hemisphere (A. bisporus, A. subfloccosus, A. bitorquis, A. vaporarius, A. cupressicola). The sixth clade encompassed an A. devoniensis complex. Species concepts, nomenclature, and relationships are discussed and compared with prior reports.
Language	English
Publishing date	2010-12-10
Publishing country	England
Document type	Journal Article
ZDB-ID	281335-x
ISSN	1557-2536 ; 0027-5514
ISSN (online)	1557-2536
ISSN	0027-5514
DOI	10.1080/15572536.2004.11833132
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