The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.
MEGA11: Molecular Evolutionary Genetics Analysis Version 11
Open accessAbstract
The Molecular Evolutionary Genetics Analysis (MEGA) software has matured to contain a large collection of methods and tools of computational molecular evolution. Here, we describe new additions that make MEGA a more comprehensive tool for building timetrees of species, pathogens, and gene families using rapid relaxed-clock methods. Methods for estimating divergence times and confidence intervals are implemented to use probability densities for calibration constraints for node-dating and sequence sampling dates for tip-dating analyses. They are supported by new options for tagging sequences with spatiotemporal sampling information, an expanded interactive Node Calibrations Editor, and an extended Tree Explorer to display timetrees. Also added is a Bayesian method for estimating neutral evolutionary probabilities of alleles in a species using multispecies sequence alignments and a machine learning method to test for the autocorrelation of evolutionary rates in phylogenies. The computer memory requirements for the maximum likelihood analysis are reduced significantly through reprogramming, and the graphical user interface has been made more responsive and interactive for very big data sets. These enhancements will improve the user experience, quality of results, and the pace of biological discovery. Natively compiled graphical user interface and command-line versions of MEGA11 are available for Microsoft Windows, Linux, and macOS from www.megasoftware.net.
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Cites
Impacts of the Cretaceous Terrestrial Revolution and KPg extinction on mammal diversification
Meredith, R. W., Janečka, J. E., Gatesy, J., Ryder, O. A., Fisher, C. A., Teeling, E. C., Goodbla, A., Eizirik, E., Simão, T. L. L., Stadler, T., et al. (2011) · Science · doi:10.1126/science.1211028 · Cited by 1,464
A new time tree reveals Earth history’s imprint on the evolution of modern birds
Claramunt, S., & Cracraft, J. (2015) · Science Advances · doi:10.1126/sciadv.1501005 · Cited by 383 · cited 1×
“For example, the memory saving was 660 MB (209 vs. 870 MB) for a sequence alignment of 229 birds with 2,728 sites (Claramunt and Cracraft 2015) and 4.5 GB (2.3 vs. 6.8 GB) for an alignment of 162 mammals with 11,010 sites (Meredith et al. 2011).”
BackgroundInfluential
Cited by
Determinants of rate variation in mammalian DNA sequence evolution.
Bromham, L., Rambaut, A., & Harvey, P. H. (1996) · Journal of Molecular Evolution · doi:10.1007/bf02202109 · Cited by 291
Confirmation of fifth Candida auris clade by whole genome sequencing
Spruijtenburg, B., Badali, H., Abastabar, M., Mirhendi, H., Khodavaisy, S., Sharifisooraki, J., Taghizadeh Armaki, M., de Groot, T., & Meis, J. F. (2022) · Emerging Microbes & Infections · doi:10.1080/22221751.2022.2125349 · Cited by 164
Mitochondrial CPT1A: Insights into structure, function, and basis for drug development
Liang, K. (2023) · Frontiers in Pharmacology · doi:10.3389/fphar.2023.1160440 · Cited by 156
Chemoreceptor co-expression in Drosophila melanogaster olfactory neurons
Task, D., Lin, C.-C., Vulpe, A., Afify, A., Ballou, S., Brbic, M., Schlegel, P., Raji, J., Jefferis, G. S., Li, H., et al. (2022) · eLife · doi:10.7554/elife.72599 · Cited by 141
Zhou, Y., Yang, L., Han, X., Han, J., Hu, Y., Li, F., Xia, H., Peng, L., Boschiero, C., Rosen, B. D., et al. (2022) · Genome Research · doi:10.1101/gr.276550.122 · Cited by 89
Metadata
- Authors
- Tamura, K., Stecher, G., & Kumar, S.
- Venue
- Molecular Biology and Evolution
- Publisher
- Oxford University Press (OUP)
- Published
- 2021-04-23
- Volume
- 38
- Issue
- 7
- Pages
- 3022-3027
- ISSN
- 0737-4038 (ISSN-L)
- 1537-1719
- OpenAlex
- W4251751280
- Cited by
- 22,403
- References
- 2
- FWCI
- 792.50
- Type
- journal article
- Language
- en
- Open access
- gold
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