Published May 5, 2022 | Version v1

FIGURE 4 in Three interesting fungal species associated with the Asian House Gecko in Kunming, China

  • 1. Center for Yunnan Plateau Biological Resources Protection and Utilization, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, Yunnan 655011, People's Republic of China & Master of Science Program in Applied Microbiology (International Program), Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand & Research Center in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand & Environmental Science Research Center, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand & Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand & erfu20170431@gmail.com; https://orcid.org/0000-0003-2385-6402
  • 2. Center for Yunnan Plateau Biological Resources Protection and Utilization, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, Yunnan 655011, People's Republic of China & saowaluckfai@gmail.com; https://orcid.org/0000-0002-4706-6547
  • 3. Center for Yunnan Plateau Biological Resources Protection and Utilization, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, Yunnan 655011, People's Republic of China & cicidaidongqin@gmail.com; https://orcid.org/0000-0001-8935-8807
  • 4. Research Center in Bioresources for Agriculture, Industry and Medicine, Chiang Mai University, Chiang Mai 50200, Thailand & Environmental Science Research Center, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand & Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai, Thailand & itthayakorn.p@cmu.ac.th; https://orcid.org/0000-0003-3376-4376
  • 5. Centre for Mountain Futures (CMF), Kunming Institute of Botany, Kunming 650201, Yunnan, People's Republic of China & peter@mail.kib.ac.cn; https://orcid.org/0000-0003-3188-9327
  • 6. Center for Yunnan Plateau Biological Resources Protection and Utilization, College of Biological Resource and Food Engineering, Qujing Normal University, Qujing, Yunnan 655011, People's Republic of China & samantha@mail.kib.ac.cn; https://orcid.org/0000-0001-7080-0781

Description

FIGURE 4. Phylogram generated from maximum likelihood analysis based on a combined ITS, rpb1, rpb2, tef1-α and Bloc sequence datasets. Related sequences were taken from Chen et al. (2018) and Khonsanit et al. (2020). A total of 81 strains are included in the combined gene analyses; 5090 total characters including gaps (ITS: 1–566 bp, rpb1: 567–1307 bp, rpb2: 1308–2430 bp, tef1-α: 2431–3429 bp, Bloc: 3430-5090 bp). Tree topology of the ML analysis was similar to the BI. The matrix had distinct alignment patterns, with the final ML optimization likelihood value of -29154.321884 (ln). All free model parameters were estimated using the RAxML model, with 1867 distinct alignment patterns and 15.05% of undetermined characters or gaps. Estimated base frequencies were as follows: A = 0.242248, C = 0.283924, G = 0.257262, T = 0.216566, with substitution rates AC = 0.928484, AG = 3.845624, AT = 0.649405, CG = 0.874887, CT = 4.792288, GT = 1.000000. The gamma distribution shape parameter alpha = 0.712530 and the Tree-Length = 1.618181. The final average standard deviation of split frequencies at the end of total MCMC generations calculated as 0.009746 in BI analysis. The species determined in this study are indicated in red. Bootstrap values equal to or greater than 70% (ML, left) and Bayesian posterior probabilities (BI, right) equal to or greater than 0.95 are given at the nodes. Hyphens (-) represent support values less than 70% in ML/0.95 in BI.

Notes

Published as part of Yang, Erfu, Tibpromma, Saowaluck, Dai, Dongqin, Promputtha, Itthayakorn, Mortimer, Peter E. & Karunarathna, Samantha C., 2022, Three interesting fungal species associated with the Asian House Gecko in Kunming, China, pp. 37-56 in Phytotaxa 545 (1) on page 44, DOI: 10.11646/phytotaxa.545.1.3, http://zenodo.org/record/6520349

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