Root biomass fraction as a function of growth degree days in wheat

Root, underground and above-ground biomass were measured on various wheat cultivars from 1986 to 1988 in the south-east of France. The results are expressed as root: total (f _r) or underground: total (f _u) biomass fractions. Observed f _r and f _u values are in good agreement with previous results. f _r and f _u decrease steadily from emergence to maturity, with an exponential tendency. When using cumulative growth degree days since emergence relative to cumulative growth degree days until ear emergence () as time scale, f _r and f _u can be expressed as simple functions of % MathType!MTEF!2!1!+-% feaafiart1ev1aaatCvAUfeBSjuyZL2yd9gzLbvyNv2CaerbuLwBLn% hiov2DGi1BTfMBaeXatLxBI9gBaerbd9wDYLwzYbItLDharqqtubsr% 4rNCHbGeaGqiVu0Je9sqqrpepC0xbbL8F4rqqrFfpeea0xe9Lq-Jc9% vqaqpepm0xbba9pwe9Q8fs0-yqaqpepae9pg0FirpepeKkFr0xfr-x% fr-xb9adbaqaaeGaciGaaiaabeqaamaabaabaaGceaqabeaacaWGMb% addaWgaaqaaiaadkhaaeqaamaabmaabaGccqaH4oqCdaahaaWcbeqa% aiaacQcaaaaamiaawIcacaGLPaaakiabg2da9iaaicdacaGGUaGaaG% imaiaaiwdacqGHRaWkcaaIWaGaaiOlaiaaiwdacaaI4aGaamyzamaa% CaaaleqabaGaeyOeI0IaaGymaiaac6cacaaI0aGaaGioaiabeI7aXn% aaCaaameqabaGaaiOkaaaaaaaakeaacaWGMbaddaWgaaqaaiaadwha% aeqaamaabmaabaGccqaH4oqCdaahaaWcbeqaaiaacQcaaaaamiaawI% cacaGLPaaakiabg2da9iaaicdacaGGUaGaaGymaiaaikdacqGHRaWk% caaIWaGaaiOlaiaaiIdacaaI4aGaamyzamaaCaaaleqabaGaeyOeI0% IaaGOmaiaac6cacaaIYaGaaGioaiabeI7aXnaaCaaameqabaGaaiOk% aaaaaaaaaaa!610D!\[\begin{gathered} f_r \left( {\theta ^* } \right) = 0.05 + 0.58e^{ - 1.48\theta ^* } \hfill \\ f_u \left( {\theta ^* } \right) = 0.12 + 0.88e^{ - 2.28\theta ^* } \hfill \\ \end{gathered} \]The incremental root biomass partitioning coefficient, % MathType!MTEF!2!1!+-% feaafiart1ev1aaatCvAUfeBSjuyZL2yd9gzLbvyNv2CaerbuLwBLn% hiov2DGi1BTfMBaeXatLxBI9gBaerbd9wDYLwzYbItLDharqqtubsr% 4rNCHbGeaGqiVu0Je9sqqrpepC0xbbL8F4rqqrFfpeea0xe9Lq-Jc9% vqaqpepm0xbba9pwe9Q8fs0-yqaqpepae9pg0FirpepeKkFr0xfr-x% fr-xb9adbaqaaeGaciGaaiaabeqaamaabaabaaGcbaGaeqySde2aaS% baaSqaaiaadkhaaeqaaOGaeyypa0JaaiikaiaadsgacaWGxbWaaSba% aSqaaiaadkhaaeqaaOGaai4laiaadsgacaWG0bGaaiykaiaac+caca% GGOaGaamizaiaadEfadaWgaaWcbaGaamiDaaqabaGccaGGVaGaamiz% aiaadshacaGGPaaaaa!4834!\[\alpha _r = (dW_r /dt)/(dW_t /dt)\], which describes the net increase in root biomass dW _r over time dt relative to the increase in total biomass (dW _r) over the same time period, has been derived from f and the relative growth rate. Its time course is accurately represented by% MathType!MTEF!2!1!+-% feaafiart1ev1aaatCvAUfeBSjuyZL2yd9gzLbvyNv2CaerbuLwBLn% hiov2DGi1BTfMBaeXatLxBI9gBaerbd9wDYLwzYbItLDharqqtubsr% 4rNCHbGeaGqiVu0Je9sqqrpepC0xbbL8F4rqqrFfpeea0xe9Lq-Jc9% vqaqpepm0xbba9pwe9Q8fs0-yqaqpepae9pg0FirpepeKkFr0xfr-x% fr-xb9adbaqaaeGaciGaaiaabeqaamaabaabaaGcbaGaeqySdegdda% WgaaqaaiaadkhaaeqaamaabmaabaGccqaH4oqCdaahaaWcbeqaaiaa% cQcaaaaamiaawIcacaGLPaaakiabg2da9iabgkHiTiaaicdacaGGUa% GaaGymaiaaiwdacqGHRaWkcaaIWaGaaiOlaiaaiAdacaaIZaGaamyz% amaaCaaaleqabaGaeyOeI0IaaGimaiaac6cacaaI5aGaaGioaiabeI% 7aXnaaCaaameqabaGaaiOkaaaaaaaaaa!4D15!\[\alpha _r \left( {\theta ^* } \right) = - 0.15 + 0.63e^{ - 0.98\theta ^* } \]Under our experimental conditions, with no severe water stresses or nutrient deficiencies, and for our sampling frequency, around 2 weeks, the development scale , is the main factor governing the time courses of f _r, f _u and _r.     

The Archaeal P-Type ATPases

A phylogenetic analysis was carried out of a total of 58 P-type ATPases encoded within the genomes of 20 archaea species. Members from six subfamilies were identified including: putative metal-, proton-, calcium-, sodium/potassium-, potassium-, and magnesium/nickel-transporting ATPases. Six novel putative proton-ATPases from archaea species growing under different temperature and pH conditions were shown to have shorter N- and C-termini than those of orthologous yeast or plant proton-ATPases. Moreover recent biochemical data are reviewed that report functional expression of putative archaea metal- or proton-ATPases in bacteria or yeast.     

Phylogenetic classification of transporters and other membrane proteins from Saccharomyces cerevisiae

On the basis of functional and phylogenetic criteria, we have identified a total of 229 subfamilies and 111 singletons predicted to carry out transport or other membrane functions in Saccharomyces cerevisiae. We have extended the Transporter Classification (TC) and created a Membrane Classification (MC) for non-transporter membrane proteins. Using the preliminary phylogenetic digits X, Y, Z (for new families, subfamilies, and clusters, respectively), we allocated a five-digit number to 850 proteins predicted to contain more than two transmembrane domains. Compared with a previous TC of the yeast genome, we classified an additional set of 538 membrane proteins (transporters and non-transporters) and identified 111 novel phylogenetic subfamilies. Electronic Publication     

Gigantism among Late Jurassic limulids: New ichnological evidence from the Causses Basin (Lozère,France) and comments on body-size evolution among horseshoe crabs

An abundant ichnological material composed of xiphosuran trackways and isolated traces was discovered in Upper Jurassic limestones from the Causses Basin (Causse Méjean, Lozère, France). The morphology of the imprints supports their identification as Kouphichnium isp. In contrast to the most frequent case, the trackways are composed of omnipresent pusher imprints sometime associated with leg traces, but with no telson mark. We argue that this pattern reflects actual surface traces rather than an incomplete set of undertracks. The size distribution of the sampled ichnites is broadly bimodal. This is best explained by sexual dimorphism, a phenomenon frequently observed in modern xiphosurans. Analysis of the trace fossils further suggests that several growth stages are recorded and that the horseshoe crabs were walking in a protected and flat environment like a lagoon. This area, certainly close to a mating ground, was occasionally affected by a continental influence. The biometric study of the tracks suggests a gigantic size for the trackmakers whose body may have reached 84 cm in length. This discovery complements the few reports on other gigantic horseshoe crabs in the Jurassic of Western Europe, thus casting doubt on the postulated increase in body size from the Palaeozoic to the Recent. Furthermore, a literature review shows that there are still major gaps in the record of limulid body-fossils and tracks. Thus, neither of these archives can be taken at face value for quantifying the body-size evolution of horseshoe crabs.     

An Assessment of Habitat Diversity and Transformation on La Réunion Island (Mascarene Islands,Indian Ocean) as a Basis for Identifying Broad-scale Conservation Priorities

Most natural habitat in the Mascarene Islands (Mauritius, La Réunion and Rodrigues) has been transformed. Although urbanisation, agriculture and alien plant invasions have transformed large areas in La Réunion, the island has by far the greatest area of intact habitats in the Mascarenes, but remaining natural areas are under threat. We propose a protocol for defining a system of habitat types and for using these to provide a preliminary assessment of conservation priorities for La Réunion. The protocol draws on existing data and expert knowledge to map habitat types, assesses the extent of habitat transformation, and quantifies heterogeneity between habitat types based on climate, topography and geology. The pattern of habitat transformation was uneven among the nineteen habitat types identified. While three habitats have lost > 95% of their original area, four still retain> 80% of their original extent. Habitat types could be grouped into the following categories: (i) transformed habitats with low levels of plant endemism, (ii) habitats confined to homogenous geology with high levels of plantendemism, and (iii) species-rich heterogeneous habitats on diverse geological types. Priority habitats were also identified using municipalities as a basis for implementation. Urgent action is required for several habitat types where a large part of the original extent has been transformed. Three municipalities which contain more than 10 habitat types should receive conservation priority. The analysis provides the basis for setting conservation priorities in La Réunion at the regional and local scale. Implications of the results are discussed with reference to requirements for finer-scale conservation planning.     

Emergence of species-specific transporters during evolution of the hemiascomycete phylum

We have traced the evolution patterns of 2480 transmembrane transporters from five complete genome sequences spanning the entire Hemiascomycete phylum: Saccharomyces cerevisiae, Candida glabrata, Kluyveromyces lactis, Debaryomyces hansenii, and Yarrowia lipolytica. The use of nonambiguous functional and phylogenetic criteria derived from the TCDB classification system has allowed the identification within the Hemiascomycete phylum of 97 small phylogenetic transporter subfamilies comprising a total of 355 transporters submitted to four distinct evolution patterns named "ubiquitous," "species specific," "phylum gains and losses," or "homoplasic." This analysis identifies the transporters that contribute to the emergence of species during the evolution of the Hemiascomycete phylum and may aid in establishing novel phylogenetic criteria for species classification.     

A microsatellite-based consensus linkage map for species of Eucalyptus and a novel set of 230 microsatellite markers for the genus

Background  

Eucalypts are the most widely planted hardwood trees in the world occupying globally more than 18 million hectares as an important source of carbon neutral renewable energy and raw material for pulp, paper and solid wood. Quantitative Trait Loci (QTLs) in Eucalyptus have been localized on pedigree-specific RAPD or AFLP maps seriously limiting the value of such QTL mapping efforts for molecular breeding. The availability of a genus-wide genetic map with transferable microsatellite markers has become a must for the effective advancement of genomic undertakings. This report describes the development of a novel set of 230 EMBRA microsatellites, the construction of the first comprehensive microsatellite-based consensus linkage map for Eucalyptus and the consolidation of existing linkage information for other microsatellites and candidate genes mapped in other species of the genus.     

Genetic diversity and networks of exchange: a combined approach to assess intra-breed diversity

Background

Cryopreservation of three endangered Belgian sheep breeds required to characterize their intra-breed genetic diversity. It is assumed that the genetic structure of a livestock breed depends mostly on gene flow due to exchanges between herds. To quantify this relation, molecular data and analyses of the exchanges were combined for three endangered Belgian breeds.

Methods

For each breed, between 91 and 225 sheep were genotyped with 19 microsatellites. Genetic differentiations between breeds and among herds within a breed were evaluated and the genetic structure of the breeds was described using Bayesian clustering (Structure). Exchanges of animals between 20, 46 and 95 herds according to breed were identified via semi-directed interviews and were analyzed using the concepts of the network theory to calculate average degrees and shortest path lengths between herds. Correlation between the Reynolds’ genetic distances and the shortest path lengths between each pair of herds was assessed by a Mantel test approach.

Results

Genetic differentiation between breeds was high (0.16). Overall Fst values among herds were high in each breed (0.17, 0.11 and 0.10). Use of the Bayesian approach made it possible to identify genetic groups of herds within a breed. Significant correlations between the shortest path lengths and the Reynolds’ genetic distances were found in each breed (0.87, 0.33 and 0.41), which demonstrate the influence of exchanges between herds on the genetic diversity. Correlation differences between breeds could be explained by differences in the average degree of the animal exchange networks, which is a measure of the number of exchanges per herd. The two breeds with the highest average degree showed the lowest correlation. Information from the exchange networks was used to assign individuals to the genetic groups when molecular information was incomplete or missing to identify donors for a cryobank.

Conclusions

A fine-scale picture of the population genetic structure at the herd level was obtained for the three breeds. Network analysis made it possible to highlight the influence of exchanges on genetic structure and to complete or replace molecular information in establishing a conservation program.