Academic literature on the topic 'Partitioned Bremer Support'

Partitioned Bremer support examination of combined cladistic analyses indicates nodes at which the support from the partitions differs, and also identifies the location of character disagreement generated by the combination of data matrices. Significant character incongruence was found between mtDNA sequence data and adult morphological characters from three tribes of bee flies (Diptera : Bombyliidae : Anthracinae : Villini, Anthracini, Exoprosopini). Partitioned Bremer support quantitatively reveals the location of significant conflict between characters from the different partitions. Examination of several partitioned support measures show which characters contributed to the disagreement at that node. A very high value of increased support at another node occurred upon combination of the data partitions and was also examined using these support measures.

AbstractScarabaeus (Pachysoma) comprises 13 flightless dung beetle species endemic to the west coast of southern Africa that are biologically unique and have a variable taxonomic history at the generic level. Initially considered a valid genus Pachysoma was subsequently synonymised with the genus Scarabaeus and later assigned sub-generic status within this genus. In an attempt to resolve past taxonomic inconsistencies, morphological and molecular data partitions, and combinations thereof, were analysed and compared across different phylogenetic inference methods. Trees obtained from the individual datasets which comprised 64 morphological characters and 1197 nucleotide sites of the mitochondrial Cytochrome Oxidase I (COI) gene, were less well-resolved than those obtained from analyses in which the data partitions were combined whilst Bayesian inference generally out-performed parsimony. However, both the individual and combined data partitions, irrespective of the method of analysis, confirmed the monophyly of the Pachysoma lineage. The relative contribution of each data partition to individual nodes as assessed by positive partitioned Bremer support values was 6:5:4 for the molecular:combined:morphological data partitions. However, in terms of contribution to the resolution of terminal versus internal nodes, the morphological dataset made proportionally the greatest contribution and was crucial for recovering a sister relationship of Pachysoma to Scarabaeus, i.e. a generic level, rather than a sub-generic one. This together with the monophyly of the Pachysoma lineage across all methods of analysis and data partitions as well as the unique morphology and biology of its constituent species warrants reinstatement of Pachysoma to its former full generic status.

Phylogenetic analyses using 28S rDNA, elongation factor (EF)-1α, and mt 16S rDNA sequences were performed to test the monophyly of Thereva Latreille. Two of the three Afrotropical Thereva species groups lack the genitalia characters that unambiguously diagnose Thereva in the Holarctic Region, but phylogenetic relationships among Thereva species groups and therevine genera are poorly understood. Using an extensive taxonomic sample (39 of the 62 therevine genera) and Thereva, sensu lato (15 spp.), simultaneous analyses of all three gene partitions recovered Nearctic and Palaearctic Thereva species in a well supported clade that includes the Afrotropical seminitida-group but excludes the Afrotropical analis- and turneri-groups. Stronger phylogenetic signal from the EF-1α partition, measured by the skewness statistic and proportion of total parsimony informative characters, dominated conflicting signal from the 16S partition and weaker, but more congruent, signal from 28S. Reducing the taxonomic sample in analyses of Therevinae reduced homoplasy, increased phylogenetic structure and partitioned Bremer support values and reduced incongruence with 28S for the 16S partition. Although molecular analyses yielded partial recovery of informal therevine genus-groups, morphological diagnoses of higher-level groups are poorly supported with the exception of Cyclotelini. The ‘Holarctic radiation’ refers to a diverse clade of genera closely related to Pandivirilia Irwin & Lyneborg and Acrosathe Irwin & Lyneborg widely distributed throughout the Holarctic Region that is the sister-group to Thereva, sensu stricto. Results from these analyses underscore the importance of male and female genitalia characters in recognising monophyletic groups and regional endemism in therevine diversification.

AbstractThe results of a cladistic analysis based on a combined character matrix consisting of the morphological data set of Meier & Hilger (2000) and the molecular data set of Baker & al. (2001) is presented. The data set is subjected to an extensive sensitivity analysis and equal character weighting is found to perform best according to character incongruence and tree support. The sensitivity analysis also reveals a remarkable stability of the preferred tree with 25 of the 36 tree nodes supported under 16 different analysis conditions. Cyrtodiopsis is synonymized with Teleopsis and Shillito's (1971) synonymization of Trichodiopsis and Chaetodiopsis with Diasemopsis is confirmed. Morphological and DNA sequence data agree on all major clades and conflict is restricted to the placement of two species within their respective genera. Only in one case can the conflict be confidently resolved. Partitioned Bremer Support values reveal that 90% of the tree support is generated by the DNA sequence characters, although the average morphological character contributes twice the support of an average molecular character. The evolution of eye-stalk morphology and of a meiotic drive chromosome system in Teleopsis is briefly discussed in the light of the phylogenetic tree.

AbstractThe cactus-feeding Phycitinae are a New World group of moth genera that has long been the focus of ecological and biological control related studies, but the group's evolutionary and phylogenetic relationships have remained largely unknown. Here phylogenetic relationships of 15 cactus-associated and 12 allegedly related but non cactus-associated genera of Phycitinae are established based on 64 characters from adult morphology. The resulting phylogeny is the first cladistic higher-level phylogenetic analysis for any group of Phycitinae genera. It is well resolved, albeit weakly supported, and supports the monophyly of a previously suggested group comprised by the true cactus-feeders and the genera Baphala, Zophodia and Rhagea. A clade comprising all cactus feeders with the non-cactus feeder genus Rhagea nested within is retrieved, indicating a single origin of cactus feeding within Phycitinae; however, this clade is poorly supported. Larvae that are predacious on scale insects appear to have evolved at least twice. Evaluations of the different character systems in adult skeletal morphology demonstrate that although some systems contribute little to overall partitioned Bremer support, they might provide critical support at individual nodes. This is supporting earlier workers who suggested that as many characters as possible are needed to establish phylogenetic relationships within Phycitinae. The hitherto scarcely explored region of the pregenitalic abdomen promises to be of considerable importance in phycitine phylogenetics.

Sequence data from 658 base pairs of mitochondrial cytochrome c oxidase I (cox1) were analysed for 28 described species of Pipunculidae (Diptera) in an effort to test the concept of DNA Barcoding on this family. Two recently revised but distantly related pipunculid lineages with presumed different evolutionary histories were used for the test (Clistoabdominalis Skevington, 2001 and Nephrocerus Zetterstedt, 1838). An effort was made to test the concept using sister taxa and morphologically similar sibling species swarms in these two genera. Morphological species concepts for Clistoabdominalis taxa were either supported by cox1 data or found to be too broad. Most of the discordance could be accounted for after reassessing morphological characters. In these cases, the molecular data were invaluable in assisting taxonomic decision-making. The radiation of Nearctic species of Nephrocerus could not be diagnosed using cox1. The ability of cox1 to recover phylogenetic signal was also tested on Clistoabdominalis. Morphological data for Clistoabdominalis were combined with the molecular data set. The pipunculid phylogeny from molecular data closely resembles the published phylogeny based on morphology. Partitioned Bremer support is used to localize areas of conflict between the datasets.

Aetosauria is an early-diverging clade of pseudosuchians (crocodile-line archosaurs) that had a global distribution and high species diversity as a key component of various Late Triassic terrestrial faunas. It is one of only two Late Triassic clades of large herbivorous archosaurs, and thus served a critical ecological role. Nonetheless, aetosaur phylogenetic relationships are still poorly understood, owing to an overreliance on osteoderm characters, which are often poorly constructed and suspected to be highly homoplastic. A new phylogenetic analysis of the Aetosauria, comprising 27 taxa and 83 characters, includes more than 40 new characters that focus on better sampling the cranial and endoskeletal regions, and represents the most comprenhensive phylogeny of the clade to date. Parsimony analysis recovered three most parsimonious trees; the strict consensus of these trees finds an Aetosauria that is divided into two main clades: Desmatosuchia, which includes the Desmatosuchinae and the Stagonolepidinae, and Aetosaurinae, which includes the Typothoracinae. As defined Desmatosuchinae now containsNeoaetosauroides engaeusand several taxa that were previously referred to the genusStagonolepis, and a new clade, Desmatosuchini, is erected for taxa more closely related toDesmatosuchus. Overall support for some clades is still weak, and Partitioned Bremer Support (PBS) is applied for the first time to a strictly morphological dataset demonstrating that this weak support is in part because of conflict in the phylogenetic signals of cranial versus postcranial characters. PBS helps identify homoplasy among characters from various body regions, presumably the result of convergent evolution within discrete anatomical modules. It is likely that at least some of this character conflict results from different body regions evolving at different rates, which may have been under different selective pressures.

AbstractThe phylogeny of semi-aquatic bugs (Hemiptera-Heteroptera: Gerromorpha) was tested in parsimony analyses of 64 morphological characters and approximately 2.5 kb of DNA sequence data from the mitochondrial genes encoding COI+II and 16SrRNA and the nuclear gene encoding 28SrRNA. The taxon sample included representatives of all families and most subfamilies of Gerromorpha and a selection of outgroup taxa representing the two basal infraorders of Heteroptera, Enicocephalomorpha and Dipsocoromorpha, and two families of Nepomorpha. A simultaneous analysis (SA) of all data, and with gaps scored as fifth state characters, gave a single most parsimonious tree with all families resolved as monophyletic, except the Veliidae, where Microveliinae + Haloveliinae, Veliinae, Rhagoveliinae, Perittopinae, and Ocelloveliinae were resolved as successive sister groups to the Gerridae, thus confirming earlier statements about paraphyly of this family. The Gerridae + Veliidae clade was strongly supported, but otherwise only the Gerridae + Veliidae less Ocelloveliinae and the Gerridae itself had support. These three clades could all be diagnosed on apomorphic morphological characters, although no characters diagnosing the Gerridae were without convergences or present in all included taxa. While the Ocelloveliinae, Veliinae and Haloveliinae could not be diagnosed on convincing apomorphies, the Microveliinae + Haloveliinae, and their sister group relationship with the Gerridae, could be diagnosed on rather strong morphological synapomorphies, suggesting that Gerridae could be expanded to include these two veliid subfamilies, while Ocelloveliinae, and perhaps the remaining veliid subfamilies, could be elevated to new families. In Gerridae, the Ptilomerinae + Halobatinae was sister group to all other subfamilies, while the Rhagadotarsinae + Trepobatinae was sister group to a clade comprising the Gerrinae, Eotrechinae, Cylindrostethinae and Charmatometrinae. Most relationships in this clade were poorly supported and diagnosed, and Cylindrostethinae was surprisingly found to be paraphyletic. The sister group to the Gerridae + Veliidae clade was a strongly supported clade comprising the Paraphrynoveliidae and Macroveliidae, and this, and the lack of convincing synapomorphies for Paraphrynoveliidae, suggest that these two small families could be synonymized. For the basal relationships of Gerromorpha, the Mesoveliidae was strongly supported sister group to all other families, while the Hebridae, Hermatobatidae and Hydrometridae formed a poorly supported and poorly diagnosed sister group to the Gerridae + Veliidae + Paraphrynoveliidae + Macroveliidae clade. The unexpected sister group relationship between Hermatobatidae and Hydrometridae was moderately supported, and could be diagnosed on two synapomorphies, thus giving a new hypothesis about the relationships of these very divergent families. Phylogenetic analyses of individual character partitions gave less resolved and less supported relationships, and the mitochondrial genes COI+II and 16SrRNA contributed negative hidden partitioned Bremer support (HPBS) to the simultaneous analysis tree, probably due to homoplasy caused by saturation effects.

External and internal features of the head of adult Nevrorthus apatelios are described in detail. The results are compared with data from literature. The mouthpart muscle M. stipitalis transversalis and a hypopharyngeal transverse ligament are newly described for Neuroptera and herewith reported for the first time in Endopterygota. A submental gland with multiporous opening is described for Nevrorthidae and Osmylidae and is apparently unique among insects. The parsimony analysis indicates that Sisyridae is the sister group to all remaining Neuroptera. This placement is supported by the development of 1) a transverse division of the galea in two parts in all Neuroptera excluding Sisyridae, 2) the above mentioned submental gland in Nevrorthidae and Osmylidae, and 3) a poison system in all neuropteran larvae except Sisyridae. Implications for the phylogenetic relationships from the interpretation of larval character evolution, specifically the poison system, cryptonephry and formation of the head capsule are discussed.

Advanced Integrated Modular Avionics (A-IMA) will drive new focus and challenges for Model Based Engineering (MBE). First, there is the need to bridge MBE to legacy system elements that were developed without MBE along with the need to handle hybrid Open System Architecture / Integrated Modular Avionics (OSA/IMA) based architectures. Second, there is the need for MBE to be reusable and interoperable across product development cycles as technology insertions occur. Third, there is the need for integration of MBE into synthesizable descriptions that can also be effectively validated for mixed general purpose, safety, and secure computing and networking environments. Fourth is the need for effective application of MBE in hybrid waterfall and agile development environments where target infrastructure is scalable in capability and cost. Fifth is the need for MBE to support partitioned roles across companies, government, and universities where one entity does requirements, one does architecture, one develops components, one provides formal test, and another provides system sustainment. There are a number of industry and university efforts underway to address these focus items and challenges spread across these adjacent MBE complex system domains. This paper is focused on the current state of each of these areas relative to use in A-IMA systems based on industry initiatives and academic research. It uses the driverless car for comparison as an emerging "Advanced Integrated Modular Architecture" and identifies its parallel approaches to address these focused items and challenges. This work is being built on the authors' work exploring dual use technologies being developed for the driverless car domain that will lead to a market of 10 Million autonomous cars operating in 2020. Previous papers have addressed identification of potential advanced automotive dual use transformational hardware and software technologies including many core processing, advanced software autonomy and data fusion components, unified mixed criticality networking, and integrated cyber security for A-IMA. A testbed has also been recently proposed as a mechanism to evaluate these dual use technologies in an A-IMA context. This paper extends the dual use view to include understanding of the best-of-breed avionics MBE environment and how it can be complementary to leveraging a testbed environment in addressing affordable, scalable, and open solutions.