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Supplementary material 1 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Initial pool of 169 mitochondrial genomes

Figure 1 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure 1 Representative phylogenetic inferences of cockroaches based on various data and methods. McKittrick (1964) and McKittrick and Mackerras (1965): female and male genitalia, proventriculus and oviposition behaviour; discussion. Roth (1970): oothecal rotation; discussion. Klass and Meier (2006): male genitalia, accompanied by ethology etc.; parsimony. Wang et al. (2017): gene fragments (three mitochondrial and two nuclear), incorporating the data from Djernæs et al. (2015) and others; maximum likelihood. Bourguignon et al. (2018): mitogenome; maximum likelihood and Bayesian. Evangelista et al. (2019): transcriptome; maximum likelihood. Taxa are shown in currently recognized rank instead of original designation. Branches in orange, Blaberoidea; in green, Corydioidea; in purple, Blattoidea. Asterisk, paraphyly.

Figure 3 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure 3 Time trees of Dictyoptera estimated by MCMCTREE. Two-calibration result (middle) is regarded as the formal result of this study. Calibrated nodes are coloured, with vertical bars denoting bounds. Calibrations: Qilianiblatta namurensis (green), Valditermes brenanae (red), Piniblattella yixianensis (blue). Abbreviations: A[naplectidae], Dictyop[tera], L[amproblattidae], T[ryonicidae], Xyloph[agodea]. For detailed phylogenies showing species, see Suppl. material 11–13.

Supplementary material 5 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure S2

Figure 2 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure 2 Bayesian phylogeny of Dictyoptera inferred from ten protein-coding genes of 85 mitogenomes, excluding the third base of codon. Posterior probabilities are shown in percentage otherwise are 100%. Clades of superfamilies or higher rank are numbered, as indicated by black background in the key. Species of major taxonomic identities (all are clades) are coloured, as indicated in the key. Subfamilies of Blattidae and Blaberidae are labeled; asterisked ones are not monophyletic. For comparison with trial analyses, see Suppl. material 6–10.

Supplementary material 3 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Table S2

Supplementary material 2 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Table S1

Supplementary material 4 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure S1

Supplementary material 9 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure S6

Figure 4 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure 4 Comparison among the ages estimated in various studies. The fossils are: Valditermes brenanae Jarzembowski, 1981; Piniblattella yixianensisGao et al., 2018; Nodosigalea burmanica Li & Huang, 2018; Cretaperiplaneta kaonashi Qiu et al., 2020; Stegoblatta irmgardgroehni Anisyutkin & Gröhn, 2012. Abbreviation: ALTB, Anaplectidae + Lamproblattidae + Tryonicidae + Blattidae.

Supplementary material 8 from: Li X-R (2022) Phylogeny and age of cockroaches: a reanalysis of mitogenomes with selective fossil calibrations. Deutsche Entomologische Zeitschrift 69(1): 1-18. https://doi.org/10.3897/dez.69.68373

Figure S5

Supplementary material 1 from: Sun C-H, Huang Q, Zeng X-S, Li S, Zhang X-L, Zhang Y-N, Liao J, Lu C-H, Han B-P, Zhang Q (2022) Comparative analysis of the mitogenomes of two Corydoras (Siluriformes, Loricarioidei) with nine known Corydoras, and a phylogenetic analysis of Loricarioidei. ZooKeys 1083: 89-107. https://doi.org/10.3897/zookeys.1083.76887

COI sequences of Corydoras aeneus and C. paleatus Tables S1–S4, Figs S1–S4

Figure 2 from: Sun C-H, Huang Q, Zeng X-S, Li S, Zhang X-L, Zhang Y-N, Liao J, Lu C-H, Han B-P, Zhang Q (2022) Comparative analysis of the mitogenomes of two Corydoras (Siluriformes, Loricarioidei) with nine known Corydoras, and a phylogenetic analysis of Loricarioidei. ZooKeys 1083: 89-107. https://doi.org/10.3897/zookeys.1083.76887

Figure 2 K2P genetic distance a nucleotide diversity b Ka/Ks ratio c analyses of protein-coding genes among the eleven Corydoras mitogenomes.

Figure 3 from: Sun C-H, Huang Q, Zeng X-S, Li S, Zhang X-L, Zhang Y-N, Liao J, Lu C-H, Han B-P, Zhang Q (2022) Comparative analysis of the mitogenomes of two Corydoras (Siluriformes, Loricarioidei) with nine known Corydoras, and a phylogenetic analysis of Loricarioidei. ZooKeys 1083: 89-107. https://doi.org/10.3897/zookeys.1083.76887

Figure 3 Phylogenetic trees of 44 Siluriformes species using concatenated nucleotide sequences of 13 protein-coding genes and two rRNAs using the maximum likelihood method. Numbers in the ML tree represent SH-aLRT support/ultrafast bootstrap support values.

Figure 4 from: Sun C-H, Huang Q, Zeng X-S, Li S, Zhang X-L, Zhang Y-N, Liao J, Lu C-H, Han B-P, Zhang Q (2022) Comparative analysis of the mitogenomes of two Corydoras (Siluriformes, Loricarioidei) with nine known Corydoras, and a phylogenetic analysis of Loricarioidei. ZooKeys 1083: 89-107. https://doi.org/10.3897/zookeys.1083.76887

Figure 4 Phylogenetic tree of 44 Siluriformes species using concatenated nucleotide sequences of 13 protein-coding genes and two rRNAs via the Bayesian interference method. Applicable posterior probability values are shown.

Figure 1 from: Yi M-R, Hsu K-C, Gu S, He X-B, Luo Z-S, Lin H-D, Yan Y-R (2022) Complete mitogenomes of four Trichiurus species: A taxonomic review of the T. lepturus species complex. ZooKeys 1084: 1-26. https://doi.org/10.3897/zookeys.1084.71576

Figure 1 A Eighteen sampling localities of the genus the Trichiurus along the Chinese coast and the species composition after our surveys. Refer to Suppl. material 1: Table S1 for the abbreviations of localities. B The maximum-likelihood (ML) tree of these four Trichiurus species along the coast based on the COI gene. The numbers at the nodes are bootstrap values of the ML and NJ (neighbor-joining) analyses. The sampling size (n) indicated in parentheses C The photographs of four Trichiurus species used in the mitogenomes analyses.

Figure 3 from: Yi M-R, Hsu K-C, Gu S, He X-B, Luo Z-S, Lin H-D, Yan Y-R (2022) Complete mitogenomes of four Trichiurus species: A taxonomic review of the T. lepturus species complex. ZooKeys 1084: 1-26. https://doi.org/10.3897/zookeys.1084.71576

Figure 3 The maximum-likelihood (ML) tree of the Trichiuridae based on the sequences of mitogenome (excluding d-loop). The numbers at the nodes are bootstrap values of the ML and NJ (neighbor-joining) analyses.

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Supplementary material 1 from: Yi M-R, Hsu K-C, Gu S, He X-B, Luo Z-S, Lin H-D, Yan Y-R (2022) Complete mitogenomes of four Trichiurus species: A taxonomic review of the T. lepturus species complex. ZooKeys 1084: 1-26. https://doi.org/10.3897/zookeys.1084.71576

Table S1–S4, Figure S1, S2

Figure 5 from: Yi M-R, Hsu K-C, Gu S, He X-B, Luo Z-S, Lin H-D, Yan Y-R (2022) Complete mitogenomes of four Trichiurus species: A taxonomic review of the T. lepturus species complex. ZooKeys 1084: 1-26. https://doi.org/10.3897/zookeys.1084.71576

Figure 5 The simple regression and the boxplot analysis in T. japonicus (blue), T. lepturus (orange) and T. nanhaiensis (grey) A Total length [D(i,n)] and Preanal length [D(i,m)] B Caudal length [D(m,n)] and Body depth at anus [D(e,f)] C Head depth [D(d,o)] and Orbital length [D(j,k)] and D Head length [D(i,l)] and Head depth [D(d,o)]. The landmarks are illustrated in Fig. 2.

Figure 4 from: Yi M-R, Hsu K-C, Gu S, He X-B, Luo Z-S, Lin H-D, Yan Y-R (2022) Complete mitogenomes of four Trichiurus species: A taxonomic review of the T. lepturus species complex. ZooKeys 1084: 1-26. https://doi.org/10.3897/zookeys.1084.71576

Figure 4 The maximum-likelihood (ML) tree of six Trichiurus species in the world based on the COI gene. The numbers at the nodes are bootstrap values of the ML and NJ (neighbor-joining) analyses.