Distinct and conserved transcriptomic changes during nematode-induced giant cell development in tomato compared with Arabidopsis: a functional role for gene repression

Root-knot nematodes (RKNs) induce giant cells (GCs) from root vascular cells inside the galls. Accompanying molecular changes as a function of infection time and across different species, and their functional impact, are still poorly understood. Thus, the transcriptomes of tomato galls and laser capture microdissected (LCM) GCs over the course of parasitism were compared with those of Arabidopsis, and functional analysis of a repressed gene was performed. Microarray hybridization with RNA from galls and LCM GCs, infection-reproduction tests and quantitative reverse transcription-polymerase chain reaction (qRT-PCR) transcriptional profiles in susceptible and resistant (Mi-1) lines were performed in tomato. Tomato GC-induced genes include some possibly contributing to the epigenetic control of GC identity. GC-repressed genes are conserved between tomato and Arabidopsis, notably those involved in lignin deposition. However, genes related to the regulation of gene expression diverge, suggesting that diverse transcriptional regulators mediate common responses leading to GC formation in different plant species. TPX1, a cell wall peroxidase specifically involved in lignification, was strongly repressed in GCs/galls, but induced in a nearly isogenic Mi-1 resistant line on nematode infection. TPX1 overexpression in susceptible plants hindered nematode reproduction and GC expansion. Time-course and cross-species comparisons of gall and GC transcriptomes provide novel insights pointing to the relevance of gene repression during RKN establishment.

Two living species of coelacanths?

During the period of September 1997 through July 1998, two coelacanth fishes were captured off Manado Tua Island, Sulawesi, Indonesia. These specimens were caught almost 10,000 km from the only other known population of living coelacanths, Latimeria chalumnae, near the Comores. The Indonesian fish was described recently as a new species, Latimeria menadoensis, based on morphological differentiation and DNA sequence divergence in fragments of the cytochrome b and 12S rRNA genes. We have obtained the sequence of 4,823 bp of mitochondrial DNA from the same specimen, including the entire genes for cytochrome b, 12S rRNA, 16S rRNA, four tRNAs, and the control region. The sequence is 4.1% different from the published sequence of an animal captured from the Comores, indicating substantial divergence between the Indonesian and Comorean populations. Nine morphological and meristic differences are purported to distinguish L. menadoensis and L. chalumnae, based on comparison of a single specimen of L. menadoensis to a description of five individuals of L. chalumnae from the Comores. A survey of the literature provided data on 4 of the characters used to distinguish L. menadoensis from L. chalumnae from an additional 16 African coelacanths; for all 4 characters, the Indonesian sample was within the range of variation reported for the African specimens. Nonetheless, L. chalumnae and L. menadoensis appear to be separate species based on divergence of mitochondrial DNA.

Preliminary description of the cranium of Proteopithecus sylviae, an Egyptian late Eocene anthropoidean primate

Recent discovery of crania, dentitions, and postcrania of a primitive anthropoidean primate, Proteopithecus sylviae, at the late Eocene L-4l quarry in the Fayum, Egypt, provides evidence of a new taxonomic family of early African higher primates, the Proteopithecidae. This family could be part of the basal radiation that produced the New World platyrrhine primates, or it could be unrelated to any subsequent lineages. Although no larger than a small callitrichid or a dwarf lemur, this tiny primate already possessed many of the derived features of later anthropoids and was a diurnal and probably dimorphic species. In dental formula and other dental proportions, as well as in known postcranial features, Proteopithecus more nearly resembles platyrrhines than does any other Old World higher primate. The small size of the Proteopithecus cranium demonstrates that the defining cranial characteristics of Anthropoidea did not arise as a consequence of an increase in size during derivation from earlier prosimians.

Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes

Understanding the factors responsible for variations in mutation patterns and selection efficacy along chromosomes is a prerequisite for deciphering genome sequences. Population genetics models predict a positive correlation between the efficacy of selection at a given locus and the local rate of recombination because of Hill–Robertson effects. Codon usage is considered one of the most striking examples that support this prediction at the molecular level. In a wide range of species including Caenorhabditis elegans and Drosophila melanogaster, codon usage is essentially shaped by selection acting for translational efficiency. Codon usage bias correlates positively with recombination rate in Drosophila, apparently supporting the hypothesis that selection on codon usage is improved by recombination. Here we present an exhaustive analysis of codon usage in C. elegans and D. melanogaster complete genomes. We show that in both genomes there is a positive correlation between recombination rate and the frequency of optimal codons. However, we demonstrate that in both species, this effect is due to a mutational bias toward G and C bases in regions of high recombination rate, possibly as a direct consequence of the recombination process. The correlation between codon usage bias and recombination rate in these species appears to be essentially determined by recombination-dependent mutational patterns, rather than selective effects. This result highlights that it is necessary to take into account the mutagenic effect of recombination to understand the evolutionary role and impact of recombination.

On nomenclature and identity of Scarabaeus aeruginosus Linnaeus, S. aeruginosus Drury and S. speciosissimus Scopoli (Coleoptera: Scarabaeoidea: Cetoniinae and Rutelinae)

The valid name for the largest European species of Cetoniinae is Protaetia speciosissima (Scopoli, 1786), with Protaetia aeruginosa (Medvedev, 1964) as a junior synonym. The specimen illustrated by Scopoli in the original description is designated as the lectotype of Scarabaeus speciosissimus Scopoli, 1786. Since the lectotype is lost, a neotype from Piedmont, Italy, is designated and deposited in the Museo Civico di Storia Naturale Carmagnola, Italy. The name Scarabaeus aeruginosus Drury, 1773 is unavailable since Drury did not describe a new species but misidentified Scarabaeus aeruginosus Linné, 1767. A specimen figured by Gronovius in 1764 and cited by Linné is designated as the lectotype of Scarabaeus aeruginosus Linné, 1767. This species remains dubious, but it can be assigned to the ruteline subtribe Anticheirina.

(Table 1) Granulometry, soil pH, carbonate content and color description of soil profiles obtained in Xinghai, Tibet

Large parts of the eastern half of the Tibetan Plateau are covered between (3,500) 4,000 and nearly 6,000 m a.s.l. by alpine sedge mats (key species Kobresia pygmea), which attain an extension of ca. 450,000 km**2. It is considered to be the world's largest alpine ecosystem. Moreover, there exist isolated (relic) forests in the same area up to an altitude of 4,700 m a.s.l. mainly consisting of juniper (Juniperus) and spruce (Picea). Large parts of the Kobresia ecosystem are expected to be a grazing-resistant replacement formation, replacing forests and grass-dominated plant communities due to human and/or climatic impact. Recently, a research project was launched to increase knowledge about the properties and genesis of these forests and sedge mats (Present-day dynamics and Holocene landscape history of fragmented forest biocoenoses in Tibet; headed by G. Miehe, Marburg).

Dinoflagellate cyst species composition of recent surface samples (Appendix)

Dinoflagellate cysts and other organic-walled microfossils have been studied in recent surface sediments from the entire Norwegian-Greenland Sea. More than 30 taxa have been recognized, of which only few show a distinct distribution pattern, and allow description of four assemblages. The occurrence of most taxa is related to the relatively warmer waters of the Norwegian Sea. Algidaspaeridium? minutum s.1., Brigantedinium simplex and Impagidinium? pallidum are the only species showing a preference for colder water masses. Two species, I.? pallidum and Nematosphaeropsis labyrinthus are mainly restricted to the oceanic environment, whereas the other species have also been reported from neritic environments in previous studies. Due to the limited knowledge of the ecological and sedimentological factors influencing the occurrence of dinoflagellate cysts in oceanic environments, their distribution in recent sediments can be only related to surface water masses in a broad sense. Although the distribution of assemblages correlates with specific surface water masses, comparison with assemblages recovered from sediment traps deployed basinwide in the Norwegian-Greenland Sea (Dale and Dale, 1992) revealed some major discrepancies in species composition and percentage abundances. The differences cannot be explained with certainty at the moment, although there is some evidence that transport of dinoflagellate cysts and other fossilizable microplankton in water masses by currents, in sea-ice and sediments may modify the assemblages found in recent oceanic surface sediments from the Norwegian-Greenland Sea.

(Table 1) Occurrences of Epimeria georgiana species complex (Amphipoda) in the Weddel and Scotia Sea

DNA barcoding revealed four well-supported clades among amphipod specimens that keyed out to Epimeria georgiana Schellenberg, 1931, three clades with specimens from the southern Scotia Arc and one clade with specimens from the Weddell Sea. Detailed morphological investigations of sequenced specimens were conducted, through light and scanning electron microscopy. High magnification (500-2,000 fold) revealed features such as comb-scales on the first antenna and trich bearing pits on the fourth coxal plate to be similar for all specimens in the four clades. Consistent microstructure character differences in the Weddell Sea specimens combined with high genetic distances (COI divergence>20%) allowed the description of Epimeria angelikae, a species new to science. Specimens of E. georgiana in the other three COI clades from the Scotia Arc were morphologically indistinguishable. Representative specimens of clade A are also illustrated in detail. Our results on the high genetic divergences in epimeriid amphipods support the theory of the southern Scotia Arc being a centre of Antarctic diversification.

Cases of animal rabies by county and species, California.

Description based on: Jan. 1, 1972-Dec. 31, 1972; title from caption.