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Background: The rationale for gathering information from plants procuring nitrogen through symbiotic interactions controlled by a common genetic program for a sustainable biofuel production is the high energy demanding application of synthetic nitrogen fertilizers. We curated sequence information publicly available for the biofuel plant sugarcane, performed an analysis of the common SYM pathway known to control symbiosis in other plants, and provide results, sequences and literature links as an online database.
Methods: Sugarcane sequences and informations were downloaded from the nucEST database, cleaned and trimmed with seqclean, assembled with TGICL plus translating mapping method, and annotated. The annotation is based on BLAST searches against a local formatted plant Uniprot90 generated with CD-HIT for functional assignment, rpsBLAST to CDD database for conserved domain analysis, and BLAST search to sorghum's for Gene Ontology (GO) assignment. Gene expression was normalized according the Unigene standard, presented as ESTs/100 kb. Protein sequences known in the SYM pathway were used as queries to search the SymGRASS sequence database. Additionally, antimicrobial peptides described in the PhytAMP database served as queries to retrieve and generate expression profiles of these defense genes in the libraries compared to the libraries obtained under symbiotic interactions.
Results: We describe the SymGRASS, a database of sugarcane orthologous genes involved in arbuscular mycorrhiza (AM) and root nodule (RN) symbiosis. The database aggregates knowledge about sequences, tissues, organ, developmental stages and experimental conditions, and provides annotation and level of gene expression for sugarcane transcripts and SYM orthologous genes in sugarcane through a web interface. Several candidate genes were found for all nodes in the pathway, and interestingly a set of symbiosis specific genes was found.
Conclusions: The knowledge integrated in SymGRASS may guide studies on molecular, cellular and physiological mechanisms by which sugarcane controls the establishment and efficiency of endophytic associations. We believe that the candidate sequences for the SYM pathway together with the pool of exclusively expressed tentative consensus (TC) sequences are crucial for the design of molecular studies to unravel the mechanisms controlling the establishment of symbioses in sugarcane, ultimately serving as a basis for the improvement of grass crops.
The Neotropical frog genus Pseudopaludicola includes 25 species distributed throughout South America. Herein we review the taxonomic status of P. parnaiba relative to P. canga and the specific identity of the population treated in previous studies as Pseudopaludicola sp. 3 from Barreirinhas in the Brazilian state of Maranhão. The lack of differentiation in advertisement call, morphology, and mitochondrial markers from topotypes and different populations rejects the status of P. parnaiba and Pseudopaludicola sp. 3 from Barreirinhas as distinct species. For these reasons, we suggest to formally consider P. parnaiba as a junior synonym of P. canga. We also found that a population previously reported as P. facureae from central Brazil (Palmeiras de Goiás, Goiás) corresponds to a cryptic species that we describe here as a new species. Lastly, we provide for the first time the phylogenetic positions of P. giarettai, P. llanera and P. pusilla.
The genus of Neotropical frogs Pseudopaludicola Miranda-Ribeiro, 1926 includes 23 species, which occur throughout South America. Herein we describe a new species of Pseudopaludicola from the central region of the state of Minas Gerais (southeastern Brazil). This new species is distinguished by the adult morphology, the advertisement call, and molecular data. It is diagnosed mainly by its small size, terminal phalanges knobbed (lack of any expansion of the digital tips), proportionally short hind limbs, and its advertisement call composed of series of two-pulsed notes, emitted at a high repetition rate. In addition, we report the occurrence of the new species in the southern foothills of the Serra do Cipó National Park, at elevations lower than 800 m above sea level (a.s.l). The sister species of this new taxon is P. mineira Lobo, 1994, which occurs in rupestrian grasslands above 1200 m a.s.l. at the Serra do Cipó National Park and in Serra do Cabral, both in the state of Minas Gerais, Brazil. We also redescribe the advertisement call of P. mineira based on recordings from topotypical males and compare it to calls of related species.
Based on morphological and molecular evidence, two new species of Silene are recognized and described here, S. penduliflora F.Jafari, Keshavarzi & Doostm. sp. nov. and S. thyrsiantha F.Jafari, Mirtadz. & Keshavarzi sp. nov. The newly discovered species are distributed in the central and southeastern parts of Iran, growing in rocky habitats. Relationships among these species and their close relatives are demonstrated using nrDNA ITS and cpDNA rps16 phylogenies. Silene ghahremaninejadii, S. parrowiana, and S. shahrudensis form a clade with these new species. A key to S. penduliflora and S. thyrsiantha and their close relatives is provided.
The production of Σ0 baryons in the nuclear reaction p (3.5 GeV) + Nb (corresponding to sNN=3.18 GeV) is studied with the detector set-up HADES at GSI, Darmstadt. Σ0s were identified via the decay Σ0→Λγ with subsequent decays Λ→pπ− in coincidence with a e+e− pair from either external (γ→e+e−) or internal (Dalitz decay γ⁎→e+e−) gamma conversions. The differential Σ0 cross section integrated over the detector acceptance, i.e. the rapidity interval 0.5<y<1.1, has been extracted as ΔσΣ0=2.3±(0.2)stat±(−0.6+0.6)sys±(0.2)norm mb, yielding the inclusive production cross section in full phase space σΣ0total=5.8±(0.5)stat±(−1.4+1.4)sys±(0.6)norm±(1.7)extrapol mb by averaging over different extrapolation methods. The Λall/Σ0 ratio within the HADES acceptance is equal to 2.3±(0.2)stat±(−0.6+0.6)sys. The obtained rapidity and momentum distributions are compared to transport model calculations. The Σ0 yield agrees with the statistical model of particle production in nuclear reactions. Keywords: Hyperons, Strangeness, Proton, Nucleus.
The Miocene is a key time in the evolution of African mammals and their ecosystems witnessing the origin of the African apes and the isolation of eastern coastal forests through an expanding biogeographic arid corridor. Until recently, however, Miocene sites from the southeastern regions of the continent were unknown. Here we report discovery of the first Miocene fossil teeth from the shoulders of the Urema Rift in Gorongosa National Park, Mozambique, at the southern East African Rift System. We provide the first 1) radiometric age determinations of the fossiliferous Mazamba Formation, 2) reconstructions of past vegetation in the region based on pedogenic carbonates and fossil wood, and 3) description of fossil teeth from the southern rift. Gorongosa is unique in the East African Rift System in combining marine invertebrates, marine vertebrates, terrestrial mammals, and fossil woods in coastal paleoenvironments. The Gorongosa fossil sites offer the first evidence of persistent woodlands and forests on the coastal margins of southeastern Africa during the Miocene, and an exceptional assemblage of fossil vertebrates including new species. Further work will allow the testing of hypotheses positing the formation of a northeast-southwest arid corridor isolating species on the eastern coastal forests from those elsewhere in Africa.
Brief The Miocene is a key time in the evolution of African mammals and their ecosystems encompassing hominine origins and the establishment of an arid corridor that isolated eastern Africa’s coastal forests. Until now, however, Miocene sites from southeastern Africa have been unknown. We report the discovery of the first Miocene fossil sites from Gorongosa National Park, Mozambique, and show that these sites formed in coastal settings. We provide radiometric ages for the fossiliferous sediments, reconstructions of past vegetation based on stable isotopes and fossil wood, and a description of the first fossil teeth from the region. Gorongosa is the only paleontological site in the East African Rift that combines fossil woods, marine invertebrates, marine vertebrates, and terrestrial mammals. Gorongosa offers the first evidence of persistent woodlands and forests on the coastal margins of southeastern Africa during the Miocene.
Until now, the genus Porcelliniodes Miers, 1877 is represented in the Ibero-Balearic region by seven species. The study of 721 specimens from Portugal and Spain has led to the identification of 11 species, including poorly known species, and the description of a new species, Porcellionides ibericus sp. nov. This new species is characterized by the absence of transverse ridges on the pereonites, medium-sized lateral lobes on the cephalon, the pleon slightly retracted in relation to the pereon, pereopods without sexual differentiation, and a truncated posterior inner tip in the male pleopod I. We consider P. glaber (Koch, 1856), P. hispanus (Vandel, 1953), P. lucasioides (Vandel, 1953), P. lusitanus (Vandel, 1946), and P. molleri (Verhoeff, 1901) as valid species, while P. buddelundi (Verhoeff, 1901) and P. rufocinctus (Dollfus, 1892) are considered species inquirendae. Five species are recorded for the first time in some Portuguese districts and seven in some Spanish provinces.
This paper examines four German transportation verbs with the prefix weg-, concentrating on their syntax and their semantic and pragmatic interpretations. The empirical data investigated are from across-linguistic Corpus of German and Brazilian Portuguese as foreign languages. The analysis is based on the concept of focus, which is defined as a point on the path along which the patient of the process moves. The focus must be either mentioned or contextually evident. Each transportation verb will be able to establish a typical focus. German prefix-verbs with weg- are characterized by a focus-conflict that can be resolved through different interpretation strategies.