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2,620 results for “Molecular Phylogeny”
Figure 2 from: Lee G-E, Han T, Jeong J, Kim S-H, Park IG, Park H (2015) Molecular phylogeny of the genus Dicronocephalus (Coleoptera, Scarabaeidae, Cetoniinae) based on mtCOI and 16S rRNA genes. ZooKeys 501: 63-87. https://doi.org/10.3897/zookeys.501.8658
Figure 2 - Phylogenetic relationships among Dicronocephalus species reconstructed with Bayesian inference using COI sequences. Numbers above branches indicate ML bootstrap values and Bayesian posterior probabilities. Numbers below branches are bootstrap, symmetric resampling, and jacknife support from parsimony searches, respectively. Scale bar represents 10% nucleotide mutation rate.
Figure 7 from: Lee G-E, Han T, Jeong J, Kim S-H, Park IG, Park H (2015) Molecular phylogeny of the genus Dicronocephalus (Coleoptera, Scarabaeidae, Cetoniinae) based on mtCOI and 16S rRNA genes. ZooKeys 501: 63-87. https://doi.org/10.3897/zookeys.501.8658
Figure 7 - Umbone (in the circle) of shoulder of Dicronocephalus. A Dicronocephalus adamsi adamsi B Dicronocephalus adamsi drumonti C Dicranocephalus yui yui D Dicronocephalus dabryi E Dicronocephalus uenoi katoi F Dicronocephalus wallichii bowringi G Dicronocephalus wallichii wallichii H Dicronocephalus wallichii bourgoini.
Figure 6 from: Lee G-E, Han T, Jeong J, Kim S-H, Park IG, Park H (2015) Molecular phylogeny of the genus Dicronocephalus (Coleoptera, Scarabaeidae, Cetoniinae) based on mtCOI and 16S rRNA genes. ZooKeys 501: 63-87. https://doi.org/10.3897/zookeys.501.8658
Figure 6 - Apicosutural angle of Dicronocephalus. A Dicronocephalus adamsi adamsi B Dicronocephalus adamsi drumonti C Dicranocephalus yui yui D Dicronocephalus dabryi E Dicronocephalus uenoi katoi F Dicronocephalus wallichii bowringi G Dicronocephalus wallichii wallichii H Dicronocephalus wallichii bourgoini.
Figure 2 from: Duan L, Yang X, Liu P, Johnson G, Wen J, Chang Z (2016) A molecular phylogeny of Caraganeae (Leguminosae, Papilionoideae) reveals insights into new generic and infrageneric delimitations. PhytoKeys 70: 111-137. https://doi.org/10.3897/phytokeys.70.9641
Figure 2 - Bayesian tree of the concatenated plastid data of matK, trnL-F and psbA-trnH sequences, showing genera in subtribes Caraganinae, Chesneyinae and their close relatives. The labeled sections of Gueldenstaedtia and Tibetia followed Tsui (1979) and Zhu (2005a), respectively. Bayesian posterior probabilities (PP ≥ 0.95) and maximum likelihood bootstrap (LBS ≥ 70%) are given above and below branches, respectively. The asterisk indicates the type species of Chesneya.
Figure 3 from: Duan L, Yang X, Liu P, Johnson G, Wen J, Chang Z (2016) A molecular phylogeny of Caraganeae (Leguminosae, Papilionoideae) reveals insights into new generic and infrageneric delimitations. PhytoKeys 70: 111-137. https://doi.org/10.3897/phytokeys.70.9641
Figure 3 - Distribution (A) and representative plants (B–H) of genera in Chesneyinae. A red – Chesneya, green – Chesniella, blue – Gueldenstaedtia and yellow – Tibetia B Chesneya acaulis C Chesneya spinosa D Chesneya nubigena E Chesniella macrantha F Chesniella ferganensis G Gueldenstaedtia verna H Tibetia yadongensis.
Figure 1 from: Duan L, Yang X, Liu P, Johnson G, Wen J, Chang Z (2016) A molecular phylogeny of Caraganeae (Leguminosae, Papilionoideae) reveals insights into new generic and infrageneric delimitations. PhytoKeys 70: 111-137. https://doi.org/10.3897/phytokeys.70.9641
Figure 1 - Bayesian tree of the nrDNA ITS data, showing relationships of genera in subtribes Caraganinae, Chesneyinae and their close relatives. The labeled sections of Gueldenstaedtia and Tibetia followed Tsui (1979) and Zhu (2005a), respectively. Bayesian posterior probabilities (PP ≥ 0.95) and maximum likelihood bootstrap (LBS ≥ 70%) are given above and below branches, respectively. The asterisk indicates the name of Chesneya macrosperma has not been published, its voucher was storied in LE (details see Zhang et al. 2015b).
Figure 2 from: Yusseff-Vanegas S, Agnarsson I (2016) Molecular phylogeny of the forensically important genus Cochliomyia (Diptera: Calliphoridae). ZooKeys 609: 107-120. https://doi.org/10.3897/zookeys.609.8638
Figure 2 - Variability in feeding habits, habitat preference and morphology within Cochliomyia. *Cochliomyia aldrichi has been reported in the Florida Keys Islands. **We refer to temperatures around 10–15 °C. ● Carrion feeder; ▴ primary facultative parasite; ■ secondary facultative parasite; ★ obligate parasite.
Figure 1 from: Yusseff-Vanegas S, Agnarsson I (2016) Molecular phylogeny of the forensically important genus Cochliomyia (Diptera: Calliphoridae). ZooKeys 609: 107-120. https://doi.org/10.3897/zookeys.609.8638
Figure 1 - Phylogenetic relationship within Cochliomyia (ingroup) based on partitioned Bayesian analysis of the combined gene (COI, EF-1α, 28S rRNA and ITS2) data set. Branch support values: normal fond, Bayesian posterior probability; bold-italic font, maximum likelihood percentage bootstrap. Each color represents different species.
Figure 1 from: Dimitriou AC, Taiti S, Schmalfuss H, Sfenthourakis S (2018) A molecular phylogeny of Porcellionidae (Isopoda, Oniscidea) reveals inconsistencies with present taxonomy. In: Hornung E, Taiti S, Szlavecz K (Eds) Isopods in a Changing World. ZooKeys 801: 163-176. https://doi.org/10.3897/zookeys.801.23566
Figure 1 Dated phylogram based on concatenated data set including five genes (COI, 16s, 18s, 28s, NAK), generated using a relaxed lognormal clock in BEAST. BI posterior probabilities (>0.9) and ML bootstrap values (>60) are presented above the nodes. Estimated mean divergence time is given below the nodes only where nodes are statistically supported or the topology was identical between BI, ML and BEAST analyses. Subclades including individuals from more than one species have been collapsed to genus level, since all (except Porcellio) were monophyletic. Abbreviations: P. Porcellionidae, T. Trachelipodidae, A. Agnaridae, R. Armadillidiidae. Numbers in parentheses after each taxon name refer to numbering of taxa in Table 1.
Supplementary material 1 from: Ikagawa RM, Moore W (2022) Molecular phylogeny and revision of species groups of Nearctic bombardier beetles (Carabidae, Brachininae, Brachinus ( Neobrachinus)). ZooKeys 1131: 155-171. https://doi.org/10.3897/zookeys.1131.85218
Supplementary data
Supplementary material 3 from: Mirza ZA, H. T. Lalremsanga, Bhosale H, Gowande G, Patel H, Idiatullina SS, Poyarkov NA (2023) Systematics of Trimeresurus popeiorum Smith, 1937 with a revised molecular phylogeny of Asian pitvipers of the genus Trimeresurus Lacépède, 1804 sensu lato. Evolutionary Systematics 7(1): 91-104. https://doi.org/10.3897/evolsyst.7.97026
ML phylogeny of Asian pit vipers based on cyt b gene
Supplementary material 2 from: Mirza ZA, H. T. Lalremsanga, Bhosale H, Gowande G, Patel H, Idiatullina SS, Poyarkov NA (2023) Systematics of Trimeresurus popeiorum Smith, 1937 with a revised molecular phylogeny of Asian pitvipers of the genus Trimeresurus Lacépède, 1804 sensu lato. Evolutionary Systematics 7(1): 91-104. https://doi.org/10.3897/evolsyst.7.97026
Uncorrected sequence divergence for cyt b gene for selected pit vipers
Supplementary material 1 from: Mirza ZA, H. T. Lalremsanga, Bhosale H, Gowande G, Patel H, Idiatullina SS, Poyarkov NA (2023) Systematics of Trimeresurus popeiorum Smith, 1937 with a revised molecular phylogeny of Asian pitvipers of the genus Trimeresurus Lacépède, 1804 sensu lato. Evolutionary Systematics 7(1): 91-104. https://doi.org/10.3897/evolsyst.7.97026
Accession numbers for sequences used in the study and sequence evolution model
Supplementary material 4 from: Mirza ZA, H. T. Lalremsanga, Bhosale H, Gowande G, Patel H, Idiatullina SS, Poyarkov NA (2023) Systematics of Trimeresurus popeiorum Smith, 1937 with a revised molecular phylogeny of Asian pitvipers of the genus Trimeresurus Lacépède, 1804 sensu lato. Evolutionary Systematics 7(1): 91-104. https://doi.org/10.3897/evolsyst.7.97026
ML phylogeny for selected Asian pit vipers based on 16S rRNA
Fig. 4 in Taxonomic revision of Bergera J.Koenig ex L. (Rutaceae) based on the molecular phylogeny and morphology
Fig. 4. Bergera crenulata (Turcz.) F.J.Mou comb. nov. A. Stem. B. Leaves. C. Inflorescence. D. Flowers. E–F. Fruit. Photos taken by Chuang His in Taiwan, China.
Fig. 8 in Taxonomic revision of Bergera J.Koenig ex L. (Rutaceae) based on the molecular phylogeny and morphology
Fig. 8. Bergera kwangsiensis (C.C.Huang) F.J.Mou comb. nov. A. Plant. B. Inflorescence. C. Flowers and young fruits. D–E. Infructescence. F. Pistil. G. Stamens. H. Ovary crossection. Photos taken by Feng-Juan Mou in China.
Fig. 5 in Taxonomic revision of Bergera J.Koenig ex L. (Rutaceae) based on the molecular phylogeny and morphology
Fig. 5. Bergera euchrestifolia (Hayata) F.J.Mou comb. nov. A. Stem. B. Leaves. C–E. Fruits. F. Seed. Photos taken by Chuang His in Taiwan, China.
FIG. 4 in Morphological description and molecular phylogeny of two diatom clones from the genus Ulnaria (Kützing) Compère isolated from an ultraoligotrophic lake at the Pole of Cold in the Northern Hemisphere, Republic of Sakha (Yakutia), Russia
FIG. 4. — Phylogenetic analysis of rbcL gene fragments, carried out by the maximum likelihood method. In the tree nodes there are bootstrap values obtained for n = 1000 replicas. Evolution distances are determined by the GTR method with Gamma distributed equal to four. ● Marked sequences obtained in this work.
Integrating fossil flowers into the angiosperm phylogeny using molecular and morphological evidence
<p><span>F</span><span>ossils are essential to infer past evolutionary processes. The assignment of fossils to extant clades has traditionally relied on morphological similarity and on apomorphies shared with extant taxa. The use of explicit phylogenetic analyses to establish fossil affinities has so far remained limited. In this study, we built a comprehensive framework to investigate the phylogenetic placement of 24 exceptionally preserved fossil flowers. For this, we assembled a new species-level dataset of 30 floral traits for 1,201 extant species that were sampled to capture the stem and crown nodes of all angiosperm families. We explored multiple analytical approaches to integrate the fossils into the phylogeny, including different phylogenetic estimation methods, topological-constrained analyses, and combining molecular and morphological data of extant and fossil species. Our results were widely consistent across approaches and showed minor differences in the support of fossils at different phylogenetic positions. The placement of some fossils agrees with previously suggested relationships, but for others, a new placement is indicated. We also identified fossils that are well supported within particular extant families, whereas others showed high phylogenetic uncertainty. Finally, we present recommendations for future analyses combining molecular and morphological evidence, regarding the selection of fossils and appropriate methodologies, and provide some perspectives on how to integrate fossils into the investigation of divergence times and the temporal evolution of morphological traits.</span></p>
Supplementary material 1 from: Du F-C, Li Y-H, Xu K-D (2023) Morphology and molecular phylogeny of Pleurosigma pacificum sp. nov. (Pleurosigmataceae), a new tropical pelagic species from the Western Pacific Ocean. PhytoKeys 227: 99-108. https://doi.org/10.3897/phytokeys.227.103890
GenBank accession of SSU rDNA and rbcL gene sequences
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