Phylogenetic Mapping of Intron Positions: A Case Study of Translation Initiation Factor eIF2γ

Krauß, Veiko; Pecyna, Marek J.; Kurz, Katrin; Sass, Heinz

doi:10.1093/molbev/msh255

Cited by 41 publications

(34 citation statements)

References 36 publications

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“…Ancestral character states were inferred using parsimony analysis under an Mk1 model in Mesquite. Character states were mapped onto a cladogram representing the currently accepted phylogenetic relationships between insect species (Krauss et al 2005;Robertson 2005;Savard et al 2006). Reconstructions of the ancestral E(spl)-C are shown at the nodes and genes are color coded as for Figure 4.…”

Section: Discussion Evolution Of the Arthropod E(spl) Complexmentioning

confidence: 99%

Evolution of a genomic regulatory domain: The role of gene co-option and gene duplication in the Enhancer of split complex

Duncan¹,

Dearden²

2010

Genome Res.

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The Drosophila Enhancer of split complex [E(spl)-C] is a remarkable complex of genes many of which are effectors or modulators of Notch signaling. The complex contains different classes of genes including four bearded genes and seven basic helix-loop-helix (bHLH) genes. We examined the evolution of this unusual complex by identifying bearded and bHLH genes in the genome sequences of Arthropods. We find that a four-gene E(spl)-C, containing three bHLH genes and one bearded gene, is an ancient component of the genomes of Crustacea and Insects. The complex is well conserved in insects but is highly modified in Drosophila, where two of the ancestral genes of the complex are missing, and the remaining two have been duplicated multiple times. Through examining the expression of E(spl)-C genes in honeybees, aphids, and Drosophila, we determined that the complex ancestrally had a role in Notch signaling. The expression patterns of genes found inserted into the complex in some insects, or that of ancestral E(spl)-C genes that have moved out of the complex, imply that the E(spl)-C is a genomic domain regulated as a whole by Notch signaling. We hypothesize that the E(spl)-C is a Notch-regulated genomic domain conserved in Arthropod genomes for around 420 million years. We discuss the consequence of this conserved domain for the recruitment of novel genes into the Notch signaling cascade.

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Section: Discussion Evolution Of the Arthropod E(spl) Complexmentioning

confidence: 99%

Evolution of a genomic regulatory domain: The role of gene co-option and gene duplication in the Enhancer of split complex

Duncan¹,

Dearden²

2010

Genome Res.

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“…2). In addition to delineating the genetic features of the parasites, the intron orientations disclosed in the B. microti group should prove phylogenetically meaningful in describing rare genomic changes such as indels [18,19,24], for temporal landmarks of evolution.…”

Section: Discussionmentioning

confidence: 99%

Babesia microti-Group Parasites Compared Phylogenetically by Complete Sequencing of the CCT.ETA. Gene in 36 Isolates

et al. 2009

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ABSTRACT. Babesia microti, the erythroparasitic cause of human babesiosis, has long been taken to be a single species because classification by parasite morphology and host spectrum blurred distinctions between the parasites. Phylogenetic analyses of the 18S ribosomal RNA gene (18S rDNA) and, more recently, the β-tubulin gene have suggested inter-group heterogeneity. Intra-group relationships, however, remain unknown. This study was conducted to clarify the intra-and inter-group phylogenetic features of the B. microti-group parasites with the η subunit of the chaperonin-containing t-complex polypeptide l (CCTη) gene as a candidate genetic marker for defining the B. microti group. We prepared complete sequences of the CCTη gene from 36 piroplasms and compared the phylogenetic trees. The B. microti-group parasites clustered in a monophyletic assemblage separate from the Babesia sensu stricto and Theileria genera and subdivided predominantly into 4 clades (U.S., Kobe, Hobetsu, Munich) with highly significant evolutionary distances between the clades. B. rodhaini branched at the base of the B. microti-group parasites. In addition, a unique intron presence/absence matrix not observable in 18S rDNA or β-tubulin set the B. microti group entirely apart from either Babesia sensu stricto or Theileria. These results have strong implications for public health, suggesting that the B. microti-group parasites are a full-fledged genus comprising, for now, four core species, i.e., U.S., Kobe, Hobetsu, and Munich species nova. Furthermore, the CCTη gene is an instructive and definitive genetic marker for analyzing B. microti and related parasites.

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“…Honeybees are hymenoptera and considered to be the most basal branch of holometabolous insects (Krauss et al, 2005;Savard et al, 2006;Zdobnov and Bork, 2007), indicating this is an ancestral character in holometabolous insects. It seems that Otd genes in the ancestor of holometabolous insects regulated both anteroposterior and dorsoventral systems, but in Tribolium, the contribution of otd1 to anteroposterior patterning has been reduced.…”

Section: Regulation Of Dorsoventral Gene Expression By Orthodenticle mentioning

confidence: 99%

Diversity in insect axis formation: two orthodenticle genes and hunchback act in anterior patterning and influence dorsoventral organization in the honeybee (Apis mellifera)

Wilson

Dearden

2011

Development

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SUMMARYAxis formation is a key step in development, but studies indicate that genes involved in insect axis formation are relatively fast evolving. Orthodenticle genes have conserved roles, often with hunchback, in maternal anterior patterning in several insect species. We show that two orthodenticle genes, otd1 and otd2, and hunchback act as maternal anterior patterning genes in the honeybee (Apis mellifera) but, unlike other insects, act to pattern the majority of the anteroposterior axis. These genes regulate the expression domains of anterior, central and posterior gap genes and may directly regulate the anterior gap gene giant. We show otd1 and hunchback also influence dorsoventral patterning by regulating zerknült (zen) as they do in Tribolium, but that zen does not regulate the expression of honeybee gap genes. This suggests that interactions between anteroposterior and dorsalventral patterning are ancestral in holometabolous insects. Honeybee axis formation, and the function of the conserved anterior patterning gene orthodenticle, displays unique characters that indicate that, even when conserved genes pattern the axis, their regulatory interactions differ within orders of insects, consistent with relatively fast evolution in axis formation pathways.

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Phylogenetic Mapping of Intron Positions: A Case Study of Translation Initiation Factor eIF2γ

Cited by 41 publications

References 36 publications

Evolution of a genomic regulatory domain: The role of gene co-option and gene duplication in the Enhancer of split complex

Evolution of a genomic regulatory domain: The role of gene co-option and gene duplication in the Enhancer of split complex

Babesia microti-Group Parasites Compared Phylogenetically by Complete Sequencing of the CCT.ETA. Gene in 36 Isolates

Diversity in insect axis formation: two orthodenticle genes and hunchback act in anterior patterning and influence dorsoventral organization in the honeybee (Apis mellifera)

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