Who ate whom? Adaptive Helicobacter genomic changes that accompanied a host jump from early humans to large felines

Helicobacter pylori infection of humans is so old that its population genetic structure reflects that of ancient human migrations. A closely related species, Helicobacter acinonychis, is specific for large felines, including cheetahs, lions, and tigers, whereas hosts more closely related to humans harbor more distantly related Helicobacter species. This observation suggests a jump between host species. But who ate whom and when did it happen? In order to resolve this question, we determined the genomic sequence of H. acinonychis strain Sheeba and compared it to genomes from H. pylori. The conserved core genes between the genomes are so similar that the host jump probably occurred within the last 200,000 (range 50,000-400,000) years. However, the Sheeba genome also possesses unique features that indicate the direction of the host jump, namely from early humans to cats. Sheeba possesses an unusually large number of highly fragmented genes, many encoding outer membrane proteins, which may have been destroyed in order to bypass deleterious responses from the feline host immune system. In addition, the few Sheeba-specific genes that were found include a cluster of genes encoding sialylation of the bacterial cell surface carbohydrates, which were imported by horizontal genetic exchange and might also help to evade host immune defenses. These results provide a genomic basis for elucidating molecular events that allow bacteria to adapt to novel animal hosts.     

Identification of polyhydroxyalkanoates in Halococcus and other haloarchaeal species

Polyhydroxyalkanoates (PHAs) are accumulated in many prokaryotes. Several members of the Halobacteriaceae produce poly-3-hydroxybutyrate (PHB), but it is not known if this is a general property of the family. We evaluated identification methods for PHAs with 20 haloarchaeal species, three of them isolates from Permian salt. Staining with Sudan Black B, Nile Blue A, or Nile Red was applied to screen for the presence of PHAs. Transmission electron microscopy and ¹H-nuclear magnetic resonance spectroscopy were used for visualization of PHB granules and chemical confirmation of PHAs in cell extracts, respectively. We report for the first time the production of PHAs by Halococcus sp. (Halococcus morrhuae DSM 1307^T, Halococcus saccharolyticus DSM 5350^T, Halococcus salifodinae DSM 8989^T, Halococcus dombrowskii DSM 14522^T, Halococcus hamelinensis JCM 12892^T, Halococcus qingdaonensis JCM 13587^T), Halorubrum sp. (Hrr. coriense DSM 10284^T, Halorubrum chaoviator DSM 19316^T, Hrr. chaoviator strains NaxosII and AUS-1), haloalkaliphiles (Natronobacterium gregoryi NCMB 2189^T, Natronococcus occultus DSM 3396^T) and Halobacterium noricense DSM 9758^T. No PHB was detected in Halobacterium salinarum NRC-1 ATCC 700922, Hbt. salinarum R1 and Haloferax volcanii DSM 3757^T. Most species synthesized PHAs when growing in synthetic as well as in complex medium. The polyesters were generally composed of PHB and poly-ß-hydroxybutyrate-co-3-hydroxyvalerate (PHBV). Available genomic data suggest the absence of PHA synthesis in some haloarchaea and in all other Euryarchaeota and Crenarchaeota. Homologies between haloarchaeal and bacterial PHA synthesizing enzymes had indicated to some authors probable horizontal gene transfer, which, considering the data obtained in this study, may have occurred already before Permian times.     

Blütenmorphologische und palynologische Untersuchungen an Littorella

In the monograph of the Plantaginaceae by Pilger (1937) Littorella is looked upon as a genus with three species. The indigenous Littorella uniflora (L.) Aschers. — native to the Atlantic Europe — is closely related to L. americana Fern., distributed in Eastern North America. In South America there occurs the most interesting species, L. australis Griseb., in two part-areas (in Southern Chile near Panguipulli-Lake and more southern near Lake San Martin to Seno de Ultima Esperenza and on Eastern Falkland-Island). Littorella is a perennial water-or swamp plant, growing on sandy and muddy soils. It can be living submersely throughout life without flowering and propagating by runners in this case. Its occurence, the structure of its inflorescence and ovary apparently quite different and the position of the male flower gave repeatedly rise in literature to the opinion, to seperate Littorella and Plantago far from each other. Indeed, in Littorella as well as in Plantago and the third genus Bougueria, native to the Andes of Peru and Bolivia, the leaves are arranged in rosettes, but the steams are extremely compressed. In the first enumerated genera, the axillary leafless main-axis is ending into a spherical to cylindrical ear, whereas in Littorella there is only one male flower (rarely two!) at the base of which there are sitting several female ones. These different opinions on the inflorescence of Littorella and its relationships to Plantago are discussed. In this connection, a flower- and pollenmorphological elaboration of the three species of the genus seemed to be useful. An evaluation of numerous flowers furnished the proof, that, also here, the ostensibly strict fourfoldness of the corolla is broken through and thus, indications for a possible derivation from a pentamere structure of the flower are to be found.     

Homology in coding and non-coding DNA sequences: a parsimony perspective

Putative synapomorphy assessment (primary homology assessment) is distinct for DNA strings having a codon structure (hereafter, coding DNA) versus those lacking it (hereafter, non-coding DNA). The first requires the identification of a reading frame and of usually few in-frame insertions and deletions. In non-coding DNA, where length variation is much more common, putative synapomorphy assessment is considerably less straightforward and highly depends on the alignment method. Appreciating the existence of evolutionary constraints, alignments that consider patterns associated with specific putative evolutionary events are favored. Once the sequences have been aligned, the postulated putative evolutionary events need to be coded as an additional step. In order for the alignments and the alignment coding to be falsifiable, they should be carried out using justified and explicitly formulated criteria. Alternative coding methods for the most common patterns present in alignments of non-coding DNA are discussed here. Simpler putative synapomorphy assessment will not always correlate to more reliable phylogenetic information because simplicity does not necessarily correlate to the degree of homoplasy. The use of non-coding DNA can result in more laborious coding, but at the same time in more corroborated hypotheses, mirroring their accuracy for phylogenetic inference.     

ALG/ATG treatment--a useful alternative for BMT in selected aplastic anaemia patients

8 patients with severe and 4 with non-severe aplastic anaemia, aged 7 to 46 years, whose suppressor lymphocyte activity was in most cases elevated and who had no histocompatible sibling donor, underwent 1-2 courses of ALG/ATG treatment. 6 patients got CR and 1 PR and during 1-4 years they live with sustaining haemopoiesis, independent of blood transfusion (except one in PR). Among these seven responders increased suppressor lymphocyte activity normalized in 6. The adverse effects of the treatment were granulocyto- and thrombocytopenia, subfebrile states, hepatotoxicity, serum sickness and skin allergy. Five patients died because of early or late complications of the treatment or it's failure. Our results, similar to other authors', are like after BMT and supports the immunological mechanism of A.A. Immunosuppressive treatment with ALG/ATG has many advantages: no need to have identical bone marrow donor, no GVHD, possibility of treatment of patients over 30, even pretreated with blood transfusions, and finally much lower costs and efforts.