TreeBASE Search-Trees for study 27596

@ARTICLE{TreeBASE2Ref31676, author = {Wu Zhang and Johannes (Ewald) Zacharias Groenewald and Lorenzo Lombard and Rene K. Schumacher and Alan John Lander Phillips and Pedro W. Crous}, title = {Evaluating species in Botryosphaeriales}, year = {2021}, keywords = {Multi-Locus Sequence Typing (MLST); canker and leaf spot pathogens; new taxa; systematics}, doi = {10.3767/persoonia.2021.46.03}, url = {http://doi.org/10.3767/persoonia.2021.46.03}, pmid = {}, journal = {Persoonia}, volume = {46}, number = {}, pages = {63--115}, abstract = {The Botryosphaeriales (Dothideomycetes) includes numerous endophytic, saprobic, and plant pathogenic species associated with a wide range of symptoms, most commonly on woody plants. In a recent phylogenetic treatment of 499 isolates in the culture collection (CBS) of the Westerdijk Institute, we evaluated the families and genera accommodated in this order of important fungi. The present study presents multigene phylogenetic analyses for an additional 230 isolates, using ITS, tef1, tub2, LSU and rpb2 loci, in combination with morphological data. Based on these data, 58 species are reduced to synonymy, and eight novel species are described. They include Diplodia afrocarpi (Afrocarpus, South Africa), Dothiorella diospyricola (Diospyros, South Africa), Lasiodiplodia acaciae (Acacia, Indonesia), Neofusicoccum podocarpi (Podocarpus, South Africa), N. rapaneae (Rapanea, South Africa), Phaeobotryon ulmi (Ulmus, Germany), Saccharata grevilleae (Grevillea, Australia) and S. hakeiphila (Hakea, Australia). The results have clarified the identity of numerous isolates that lacked Latin binomials or had been deposited under incorrect names in the CBS collection in the past. They also provide a solid foundation for more in-depth future studies on taxa in the order. Sequences of the tef1, tub2 and rpb2 genes proved to be the most reliable markers. At the species level, results showed that the most informative genes were inconsistent, but that a combination of four candidate barcodes (ITS, tef1, tub2 and rpb2) provided reliable resolution. Furthermore, given the large number of additional isolates included in this study, and newly generated multigene DNA datasets, several species could also be reduced to synonymy. The study illustrates the value of reassessing the identity of older collections in culture collections utilising modern taxonomic frameworks and methods.} }

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Trees for Study 27596

Citation title: "Evaluating species in Botryosphaeriales".

Study name: "Evaluating species in Botryosphaeriales".

This study is part of submission 27596 (Status: Published).

Trees

ID	Tree Label	Tree Title	Taxa
Tr128646	Fig. S10C (bootstrap support values overlayed). First of twenty equally most parsimonious trees of the Saccharata tef1 alignment.	Tr128646	View Taxa
Tr128645	Fig. S10C. Bayesian phylogeny of the Saccharata tef1 alignment.	Tr128645	View Taxa
Tr128643	Fig. S10B (bootstrap support values overlayed). First of ten equally most parsimonious trees of the Saccharata rpb2 alignment.	Tr128643	View Taxa
Tr128642	Fig. S10B. Bayesian phylogeny of the Saccharata rpb2 alignment.	Tr128642	View Taxa
Tr128641	Fig. S10A (bootstrap support values overlayed). First of four equally most parsimonious trees of the Saccharata ITS alignment.	Tr128641	View Taxa
Tr128640	Fig. S10A. Bayesian phylogeny of the Saccharata ITS alignment.	Tr128640	View Taxa
Tr128639	Fig. S9B (bootstrap support values overlayed). First of five equally most parsimonious trees of the Pseudofusicoccum tef1 alignment.	Tr128639	View Taxa
Tr128638	Fig. S9C. Bayesian phylogeny of the Pseudofusicoccum tub2 alignment.	Tr128638	View Taxa
Tr128637	Fig. S9B (bootstrap support values overlayed). First of 72 equally most parsimonious trees of the Pseudofusicoccum tef1 alignment.	Tr128637	View Taxa
Tr128636	Fig. S9B. Bayesian phylogeny of the Pseudofusicoccum tef1 alignment.	Tr128636	View Taxa
Tr128635	Fig. S9A (bootstrap support values overlayed). First of 30 equally most parsimonious trees of the Pseudofusicoccum ITS alignment.	Tr128635	View Taxa
Tr128634	Fig. S9A. Bayesian phylogeny of the Pseudofusicoccum ITS alignment.	Tr128634	View Taxa
Tr128633	Fig. S8C (bootstrap support values overlayed). First of six equally most parsimonious trees of the different genera tef1 alignment.	Tr128633	View Taxa
Tr128632	Fig. S8C. Bayesian phylogeny of the different genera tef1 alignment.	Tr128632	View Taxa
Tr128631	Fig. S8B (bootstrap support values overlayed). First of 84 equally most parsimonious trees of the different genera LSU alignment.	Tr128631	View Taxa
Tr128630	Fig. S8B. Bayesian phylogeny of the different genera LSU alignment.	Tr128630	View Taxa
Tr128629	Fig. S8A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the different genera ITS alignment.	Tr128629	View Taxa
Tr128628	Fig. S8A. Bayesian phylogeny of the different genera ITS alignment.	Tr128628	View Taxa
Tr128627	Fig. S7C (bootstrap support values overlayed). First of three equally most parsimonious trees of the Neoscytalidium tub2 alignment.	Tr128627	View Taxa
Tr128626	Fig. S7C. Bayesian phylogeny of the Neoscytalidium tub2 alignment.	Tr128626	View Taxa
Tr128625	Fig. S7B (bootstrap support values overlayed). Single most parsimonious tree of the Neoscytalidium tef1 alignment.	Tr128625	View Taxa
Tr128624	Fig. S7B. Bayesian phylogeny of the Neoscytalidium tef1 alignment.	Tr128624	View Taxa
Tr128623	Fig. S7A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Neoscytalidium ITS alignment.	Tr128623	View Taxa
Tr128622	Fig. S7A. Bayesian phylogeny of the Neoscytalidium ITS alignment.	Tr128622	View Taxa
Tr128620	Fig. S6D (bootstrap support values overlayed). First of six equally most parsimonious trees of the Neofusicoccum parvum complex tub2 alignment.	Tr128620	View Taxa
Tr128619	Fig. S6D. Bayesian phylogeny of the Neofusicoccum parvum complex tub2 alignment.	Tr128619	View Taxa
Tr128618	Fig. S6C (bootstrap support values overlayed). First of eighteen equally most parsimonious trees of the Neofusicoccum parvum complex tef1 alignment.	Tr128618	View Taxa
Tr128617	Fig. S6C. Bayesian phylogeny of the Neofusicoccum parvum complex tef1 alignment.	Tr128617	View Taxa
Tr128616	Fig. S6B (bootstrap support values overlayed). First of eight equally most parsimonious trees of the Neofusicoccum parvum complex rpb2 alignment.	Tr128616	View Taxa
Tr128615	Fig. S6B. Bayesian phylogeny of the Neofusicoccum parvum complex rpb2 alignment.	Tr128615	View Taxa
Tr128613	Fig. S6A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Neofusicoccum parvum complex ITS alignment.	Tr128613	View Taxa
Tr128612	Fig. S6A. Bayesian phylogeny of the Neofusicoccum parvum complex ITS alignment.	Tr128612	View Taxa
Tr128611	Fig. S5D (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Neofusicoccum tub2 alignment.	Tr128611	View Taxa
Tr128610	Fig. S5D. Bayesian phylogeny of the Neofusicoccum tub2 alignment.	Tr128610	View Taxa
Tr128609	Fig. S5C (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Neofusicoccum tef1 alignment.	Tr128609	View Taxa
Tr128608	Fig. S5C. Bayesian phylogeny of the Neofusicoccum tef1 alignment.	Tr128608	View Taxa
Tr128607	Fig. S5B (bootstrap support values overlayed). First of 640 equally most parsimonious trees of the Neofusicoccum rpb2 alignment.	Tr128607	View Taxa
Tr128606	Fig. S5B. Bayesian phylogeny of the Neofusicoccum rpb2 alignment.	Tr128606	View Taxa
Tr128575	Fig. S5A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Neofusicoccum ITS alignment.	Tr128575	View Taxa
Tr128574	Fig. S5A. Bayesian phylogeny of the Neofusicoccum ITS alignment.	Tr128574	View Taxa
Tr128573	Fig. S4D (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Lasiodiplodia tub2 alignment.	Tr128573	View Taxa
Tr128572	Fig. S4D. Bayesian phylogeny of the Lasiodiplodia tub2 alignment.	Tr128572	View Taxa
Tr128570	Fig. S4C (bootstrap support values overlayed). First of 486 equally most parsimonious trees of the Lasiodiplodia tef1 alignment.	Tr128570	View Taxa
Tr128569	Fig. S4C. Bayesian phylogeny of the Lasiodiplodia tef1 alignment.	Tr128569	View Taxa
Tr128568	Fig. S4B (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Lasiodiplodia rpb2 alignment.	Tr128568	View Taxa
Tr128567	Fig. S4B. Bayesian phylogeny of the Lasiodiplodia rpb2 alignment.	Tr128567	View Taxa
Tr128536	Fig. S4A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Lasiodiplodia ITS alignment.	Tr128536	View Taxa
Tr128535	Fig. S4A. Bayesian phylogeny of the Lasiodiplodia ITS alignment.	Tr128535	View Taxa
Tr128534	Fig. S3C (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Dothiorella tub2 alignment.	Tr128534	View Taxa
Tr128533	Fig. S3C. Bayesian phylogeny of the Dothiorella tub2 alignment.	Tr128533	View Taxa
Tr128532	Fig. S3B (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Dothiorella tef1 alignment.	Tr128532	View Taxa
Tr128531	Fig. S3B. Bayesian phylogeny of the Dothiorella tef1 alignment.	Tr128531	View Taxa
Tr128530	Fig. S3A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Dothiorella ITS alignment.	Tr128530	View Taxa
Tr128529	Fig. S3A. Bayesian phylogeny of the Dothiorella ITS alignment.	Tr128529	View Taxa
Tr128528	Fig. S2C (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Diplodia tub2 alignment.	Tr128528	View Taxa
Tr128527	Fig. S2C. Bayesian phylogeny of the Diplodia tub2 alignment.	Tr128527	View Taxa
Tr128493	Fig. S2B (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Diplodia tef1 alignment.	Tr128493	View Taxa
Tr128492	Fig. S2B. Bayesian phylogeny of the Diplodia tef1 alignment.	Tr128492	View Taxa
Tr128491	Fig. S2A (bootstrap support values overlayed). First of 1000 equally most parsimonious trees of the Diplodia ITS alignment.	Tr128491	View Taxa
Tr128490	Fig. S2A. Bayesian phylogeny of the Diplodia ITS alignment.	Tr128490	View Taxa
Tr128489	Fig. S1C (bootstrap support values overlayed). First of 35 equally most parsimonious trees of the Botryosphaeria tub2 alignment.	Tr128489	View Taxa
Tr128488	Fig. S1C. Bayesian phylogeny of the Botryosphaeria tub2 alignment.	Tr128488	View Taxa
Tr128487	Fig. S1B (bootstrap support values overlayed). First of 36 equally most parsimonious trees of the Botryosphaeria tef1 alignment.	Tr128487	View Taxa
Tr128486	Fig. S1B. Bayesian phylogeny of the Botryosphaeria tef1 alignment.	Tr128486	View Taxa
Tr128485	Fig. S1A (bootstrap support values overlayed). First of two equally most parsimonious trees of the Botryosphaeria ITS alignment.	Tr128485	View Taxa
Tr128484	Fig. S1A. Bayesian phylogeny of the Botryosphaeria ITS alignment.	Tr128484	View Taxa
Tr128483	Fig. 10 (support values overlayed). RAxML phylogeny of Saccharata multigene alignment.	Tr128483	View Taxa
Tr128482	Fig. 10. Bayesian phylogeny of Saccharata multigene alignment.	Tr128482	View Taxa
Tr128481	Fig. 9 (support values overlayed). RAxML phylogeny of Pseudofusicoccum multigene alignment.	Tr128481	View Taxa
Tr128480	Fig. 9. Bayesian phylogeny of Pseudofusicoccum multigene alignment.	Tr128480	View Taxa
Tr128479	Fig. 8 (support values overlayed). RAxML phylogeny of several genera multigene alignment.	Tr128479	View Taxa
Tr128478	Fig. 8. Bayesian phylogeny of several genera multigene alignment.	Tr128478	View Taxa
Tr128477	Fig. 7. Bayesian phylogeny of Neoscytalidium multigene alignment.	Tr128477	View Taxa
Tr128476	Fig. 6. Bayesian phylogeny of Neofusicoccum parvum species complex multigene alignment.	Tr128476	View Taxa
Tr128475	Fig. 5 (support values overlayed). RAxML phylogeny of Neofusicoccum multigene alignment.	Tr128475	View Taxa
Tr128474	Fig. 5. Bayesian phylogeny of Neofusicoccum multigene alignment.	Tr128474	View Taxa
Tr128473	Fig. 4 (support values overlayed). RAxML phylogeny of Lasiodiplodia multigene alignment.	Tr128473	View Taxa
Tr128472	Fig. 4. Bayesian phylogeny of Lasiodiplodia multigene alignment.	Tr128472	View Taxa
Tr128471	Fig. 3 (support values overlayed). RAxML phylogeny of Dothiorella multigene alignment.	Tr128471	View Taxa
Tr128470	Fig. 3. Bayesian phylogeny of Dothiorella multigene alignment.	Tr128470	View Taxa
Tr128469	Fig. 2 (support values overlayed). RAxML phylogeny of Diplodia multigene alignment.	Tr128469	View Taxa
Tr128468	Fig. 2. Bayesian phylogeny of Diplodia multigene alignment.	Tr128468	View Taxa
Tr128467	Fig. 1 (support values overlayed). RAxML phylogeny of Botryosphaeria multigene alignment.	Tr128467	View Taxa
Tr128466	Fig. 1. Bayesian phylogeny of Botryosphaeria multigene alignment.	Tr128466	View Taxa