Structurally preserved ascomycetous fungi from the Maastrichtian type area (NE Belgium)

Ham, R.W.J.M. van der; Dortangs, Rudi W.

doi:10.1016/j.revpalbo.2005.04.004

Cited by 15 publications

(4 citation statements)

References 16 publications

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“…We used three fossil calibrations to estimate divergence times, based on an analysis by Beimforde et al (2014) . These included the fossil taxa Aspergillus collembolorum ( Dörfelt and Schmidt 2005 ), Petropus brachyphylli ( van der Ham and Dortangs 2005 ), and Paleopyrenomycites devonicus ( Taylor et al 1999 , 2005 ). All distributions on node ages were skew normal with scale and shape parameters ( ɑ and β ) of 0.5 and 2, respectively.…”

Section: Methodsmentioning

confidence: 99%

Positive Selection of Transcription Factors Is a Prominent Feature of the Evolution of a Plant Pathogenic Genus Originating in the Miocene

Derbyshire

Harper

Lopez‐Ruiz

2021

Genome Biology and Evolution

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Tests based on the dN/dS statistic are used to identify positive selection of non-synonymous polymorphisms. Using these tests on alignments of all orthologues from related species can provide insights into which gene categories have been most frequently positively selected. However, longer alignments have more power to detect positive selection, creating a detection bias that could create misleading results from functional enrichment tests. Most studies of positive selection in plant pathogens focus on genes with specific virulence functions, with little emphasis on broader molecular processes. Furthermore, no studies in plant pathogens have accounted for detection bias due to alignment length when performing functional enrichment tests. To address these research gaps, we analyse 12 genomes of the phytopathogenic fungal genus Botrytis, including two sequenced in this study. To establish a temporal context, we estimated fossil-calibrated divergence times for the genus. We find that Botrytis likely originated 16-18 million years ago in the Miocene and underwent continuous radiation ending in the Pliocene. An untargeted scan of Botrytis single copy orthologues for positive selection with three different statistical tests uncovered evidence for positive selection among proteases, signalling proteins, CAZymes and secreted proteins. There was also a strong over-representation of transcription factors among positively selected genes. This over-representation was still apparent after two complementary controls for detection bias due to sequence length. Positively selected sites were depleted within DNA binding domains, suggesting changes in transcriptional responses to internal and external cues or protein-protein interactions have undergone positive selection more frequently than changes in promoter fidelity.

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Section: Methodsmentioning

confidence: 99%

Positive Selection of Transcription Factors Is a Prominent Feature of the Evolution of a Plant Pathogenic Genus Originating in the Miocene

Derbyshire

Harper

Lopez‐Ruiz

2021

Genome Biology and Evolution

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“…While most of these are associated with the leaves of angiosperms (e. g., Dilcher 1965;Smith 1980;Phipps and Rember 2004), a few have been reported on, or in association with, conifers and vascular cryptogams (e.g., Pons and Boureau 1977;Van der Ham and Dortangs 2005;Shi et al 2010;García Massini et al 2012). While most of these are associated with the leaves of angiosperms (e. g., Dilcher 1965;Smith 1980;Phipps and Rember 2004), a few have been reported on, or in association with, conifers and vascular cryptogams (e.g., Pons and Boureau 1977;Van der Ham and Dortangs 2005;Shi et al 2010;García Massini et al 2012).…”

Section: F Ascomycotamentioning

confidence: 99%

Systematics and Evolution

McLaughlin¹,

Spatafora²

2015

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“…These papers are the only attempts made so far to study cuticular and epidermal features by SEM examination using silicone replicas. Additionally, silicone replicas of complete specimens can be photographed and have been used to discern details not seen in the original material (e.g., Manchester, 1992;Van Konijnenburg-van Cittert, 2003, 2004;Van der Ham et al, 2001Van der Ham and Dortangs, 2005). A useful overview on the use of casting and moulding in palaeontology is summarized by Rigby and Clark (1965).…”

Section: Previous Investigations Using Replicas and Semmentioning

confidence: 99%

The study of cuticular and epidermal features in fossil plant impressions using silicone replicas for scanning electron microscopy

Moisan

2012

Palaeontologia Electronica

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The study of epidermal and cuticular features is crucial in palaeobotanical investigations. In fossil plant impressions organic material is not preserved and cuticular data is commonly believed to be missing. This work describes a redefined version of the silicone cast technique for SEM examination known since almost 40 years, but unfortunately rarely used in routine palaeobotanical studies. The use of silicone (vinylpolysiloxane) instead latex casts offers significant advantages such as easier handling, higher reproduction of surface details, and elimination of electrostatic charge accumulation. The results indicate that silicone represents an improvement over latex. With this technique excellent results can be achieved, possibly making visible several plant surface structures, including epidermal cells, stomata, papillae, trichomes and striations on the rachis. Moreover, this technique demonstrates that impression fossils can provide similar useful data like those seen in compressed fossils. The effectiveness of this technique is demonstrated with several examples of fossil plants from the Triassic Madygen Lagerstätte. The application of this simple, non-destructive and extremely effective technique provides significant biological information on the cuticular and epidermal features in fossil plant impressions despite the absence of cuticles, to resolve taxonomic problems as well as to infer diverse ecological adaptations.

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Structurally preserved ascomycetous fungi from the Maastrichtian type area (NE Belgium)

Cited by 15 publications

References 16 publications

Positive Selection of Transcription Factors Is a Prominent Feature of the Evolution of a Plant Pathogenic Genus Originating in the Miocene

Positive Selection of Transcription Factors Is a Prominent Feature of the Evolution of a Plant Pathogenic Genus Originating in the Miocene

Systematics and Evolution

The study of cuticular and epidermal features in fossil plant impressions using silicone replicas for scanning electron microscopy

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