Assessing the relative performance of fast molecular dating methods for phylogenomic data

Costa, Fernanda P.; Schrago, Carlos G.; Mello, Beatriz

doi:10.1186/s12864-022-09030-5

BMC Genomics

Table 1 Detailed information about the phylogenomic datasets analyzed

From: Assessing the relative performance of fast molecular dating methods for phylogenomic data

Data reference	Label	Biological group	Data type^a	Site count	Taxa count	Calibration count	Software used	Substitution model^b
Allio et al. (2020) [50]	Allio20	Arthropoda	AA	288,446	61	5	PhyloBayes	JTT + F + G₅ + I
Anderson et al. (2017) [51]	Anderson17	Annelida	AA	16,541	39	3	PhyloBayes	JTT + G₅ + I
Blaimer et al. (2018) [52]	Blaimer18	Arthropoda	N	33,874	155	7	BEAST	GTR + G₅
Borowiec (2019) [53]	Borowiec19	Arthropoda	N	44,079	162	3	BEAST	GTR + G₄
Chazot et al. (2019) [54]	Chazot19	Arthropoda	N	6260	994	22	BEAST	GTR + G₅
Delsuc et al. (2018) [55]	Delsuc18	Chordata	AA	66,593	63	11	PhyloBayes	LG + G₅^c
Delsuc et al. (2019) [56]	Delsuc19	Chordata	N	15,157	40	4	PhyloBayes	GTR + G₄
dos Reis et al. (2018) [57]	dosReis18	Chordata	N	61,132	372	17	MCMCTree	GTR + G₄
Fang et al. (2018) [58]	Fang18	Chordata	N	8079	128	3	BEAST	GTR + G₅
Feng et al. (2017) [59]	Feng17	Chordata	N	88,302	164	20	MCMCTree	GTR + G₅
Hedin et al. (2019) [60]	Hedin19	Arthropoda	N	71,483	27	3	PhyloBayes	GTR + G₅
Hughes et al. (2018) [61]	Hughes18	Chordata	N	10,203	305	31	MCMCTree	HKY + G₅
Irisarri et al. (2017) [20]	Irisarri17	Chordata	AA	14,043	100	14	PhyloBayes	JTT + F + G₄ + I
Johnson et al. (2018) [62]	Johnson18	Arthropoda	N	131,013	193	23	MCMCTree	GTR + G₅
Kuntner et al. (2019) [63]	Kuntner19	Arthropoda	N	89,212	34	2	MCMCTree	HKY + G₅
Pereira et al. (2017) [64]	Pereira17	Chordata	N	12,354	294	22	MCMCTree	GTR + G₅
Pessoa-Filho et al. (2017) [65]	PessoaFilho17	Streptophyta	N	135,255	30	1	BEAST	GTR + G₄
Peters et al. (2017) [66]	Peters17	Arthropoda	AA	75,904	174	14	MCMCTree	JTT
Peters et al. (2018) [67]	Peters18	Arthropoda	AA	1,469,006	48	3	MCMCTree	JTT
Ran et al. (2018) [68]	Ran18	Streptophyta	N	4,246,454	16	4	MCMCTree	GTR + G₅
Sann et al. (2018) [69]	Sann18	Arthropoda	N	284,607	184	10	MCMCTree	GTR + G₄
Wolfe et al. (2019) [19]	Wolfe19	Arthropoda	AA	5994	95	19	PhyloBayes	JTT + G₄^c
Yonezawa et al. (2017) [70]	Yonezawa17	Chordata	N	873,274	45	6	MCMCTree	GTR + G₈

^aN nucleotide, AA amino acid
^bThe model that was used for most partitions, if applicable. The number of discrete categories to approximate the Gamma distributions is shown

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ISSN: 1471-2164

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