Functional variants of DOG1 control seed chilling responses and variation in seasonal life-history strategies in Arabidopsis thaliana.

The seasonal timing of seed germination determines a plant's realized environmental niche, and is important for adaptation to climate. The timing of seasonal germination depends on patterns of seed dormancy release or induction by cold and interacts with flowering-time variation to construct different seasonal life histories. To characterize the genetic basis and climatic associations of natural variation in seed chilling responses and associated life-history syndromes, we selected 559 fully sequenced accessions of the model annual species Arabidopsis thaliana from across a wide climate range and scored each for seed germination across a range of 13 cold stratification treatments, as well as the timing of flowering and senescence. Germination strategies varied continuously along 2 major axes: 1) Overall germination fraction and 2) induction vs. release of dormancy by cold. Natural variation in seed responses to chilling was correlated with flowering time and senescence to create a range of seasonal life-history syndromes. Genome-wide association identified several loci associated with natural variation in seed chilling responses, including a known functional polymorphism in the self-binding domain of the candidate gene DOG1. A phylogeny of DOG1 haplotypes revealed ancient divergence of these functional variants associated with periods of Pleistocene climate change, and Gradient Forest analysis showed that allele turnover of candidate SNPs was significantly associated with climate gradients. These results provide evidence that A. thaliana's germination niche and correlated life-history syndromes are shaped by past climate cycles, as well as local adaptation to contemporary climate

Reply to Cleveland et al.’s “Detecting (trans)gene flow to landraces in centers of crop origin: lessons from the case of maize in Mexico”

Cleveland et al. (2005, Environ. Biosafety Res. 4: 197–208) offer useful suggestions for monitoring transgenes in landraces of maize, but we disagree with their statement that the scientific conclusions of our paper (Ortiz-García et al., 2005, Proc. Natl. Acad. Sci. USA 102: 12338–12343) are not justified. First, contrary to their perception, our survey was not designed to evaluate transgenes in the whole State of Oaxaca, but rather to monitor a specific portion of the District of Ixtlán de Juárez where the presence of transgenes had been reported previously by Quist and Chapela (2001, Nature 414: 541–543). Second, our paper described two methods for estimating frequencies of undetected transgenic seeds, while Cleveland et al. recommend a third approach that explicitly estimates effective population size. They argue that the effective population size of our seed samples is smaller than we assumed, leading to false claims about our detection accuracy. However, we employed a robust statistical approach to compensate for possible bias by using numbers of maternal plants, in addition to numbers of seeds, to provide a conservative estimate of the minimum number of independent samples. When we re-analyzed our 2004 data using effective population sizes, our conclusion that transgenic seeds were “absent or extremely rare” did not change, nor did the general range of possible frequencies of undetected transgenic seeds. Unlike Cleveland et al., we advocate using combined probability tests to analyze data across localities. Third, our critics argue that we accepted the null hypothesis that transgenes were absent. Actually, we assumed that transgenes were present in local landraces, and we used parameter estimation methods to calculate the probability of failing to detect transgenic individuals at a range of frequencies. In agreement with Cleveland et al., we reiterate that there is a clear need for additional surveys with rigorous sampling methods to provide estimates of transgene frequencies over broad geographic areas in Mexico

Local Extinction and Unintentional Rewilding of Bighorn Sheep (Ovis canadensis) on a Desert Island

Bighorn sheep ( Ovis canadensis) were not known to live on Tiburón Island, the largest island in the Gulf of California and Mexico, prior to the surprisingly successful introduction of 20 individuals as a conservation measure in 1975. Today, a stable island population of ∼500 sheep supports limited big game hunting and restocking of depleted areas on the Mexican mainland. We discovered fossil dung morphologically similar to that of bighorn sheep in a dung mat deposit from Mojet Cave, in the mountains of Tiburón Island. To determine the origin of this cave deposit we compared pellet shape to fecal pellets of other large mammals, and extracted DNA to sequence mitochondrial DNA fragments at the 12S ribosomal RNA and control regions. The fossil dung was 14C-dated to 1476-1632 calendar years before present and was confirmed as bighorn sheep by morphological and ancient DNA (aDNA) analysis. 12S sequences closely or exactly matched known bighorn sheep sequences; control region sequences exactly matched a haplotype described in desert bighorn sheep populations in southwest Arizona and southern California and showed subtle differentiation from the extant Tiburón population. Native desert bighorn sheep previously colonized this land-bridge island, most likely during the Pleistocene, when lower sea levels connected Tiburón to the mainland. They were extirpated sometime in the last ∼1500 years, probably due to inherent dynamics of isolated populations, prolonged drought, and (or) human overkill. The reintroduced population is vulnerable to similar extinction risks. The discovery presented here refutes conventional wisdom that bighorn sheep are not native to Tiburón Island, and establishes its recent introduction as an example of unintentional rewilding, defined here as the introduction of a species without knowledge that it was once native and has since gone locally extinct

Revista del Consejo Superior de Investigaciones Científicas

Actividad trófica de limícolas invernantes en salinas y cultivos piscícolas de la bahía de CádizUso de microhábitat del ratón de campo (Apodemus sylvatycus L.) en robledales y áreas ecotonales del Pirineo.Dieta de los pollos de tres especies simpátricas de alcaudones (Lanius spp.): variaciones con la edad, estacionales e interespecíficasOcupación de distintos modelos de nidal por el estornino negro (Sturnus unicolor)Estudio comparado sobre la biología de la reproducción de tres especies simpátricas de alcaudones (real Lanius excubitor, dorsirrojo L. collurio y común L. senatorFluctuación estacional del peso corporal de los machos adultos de Arvicola sapidus MILLER, 1908 (Rodentia, Arvicolidae)Acerca del significado de los ataques de alcaudones Lanius spp. sobre aves.Distribución de los emididos Mauremys leprosa, SCHW (1812) y Emys orbicularis, L. (1758) de la provincia de Badajoz. Factores que puedieran influir en sus áreas de ocupaciónDeterminación de la edad relativa en la rata de agua meridional, Arvicola sapidus MILLER, 1908 (Rodentia, Arvicolidae)Activity pattern, home range and habitat preference by coyotes (Canis latrans) in the Mapimi Biosphere Reserve of the Chihuahuan Desert, Mexico.Características de los refugios diarios y estacionales de Testudo graeca en DoñanaDieta del gato cimarrón (Felis catus L.) en el piso basal del Macízo de Teno (Noroeste de Tenerife)Peer reviewe

Mangrove sediment blue carbon estimates

Carbon accumulation in coastal wetlands is normally assessed by extracting a sediment core and estimating its carbon content and bulk density. Because carbon content and bulk density are functionally related, the latter can be estimated gravimetrically from a section of the core or, alternatively, from the carbon content in the sample using the Mixing Model equation from soil science. We analyzed the effect that the choice of corer and the method used to estimate bulk density could have on the final estimates of carbon storage in the sediments. The choice of corer did not have much influence on the final estimates of carbon density; the main factor in selecting a corer is the operational difficulties that each corer may have in different types of sediments. Because of the multiplication of errors in a product of two variables subject to random sampling error, when using gravimetric estimates of bulk density, the dispersion of the data points in the estimation of total carbon density rises rapidly as the amount of carbon in the soil increases. For this reason, the estimation of carbon densities in peaty soils with this method can be very imprecise in peaty sediments. In contrast, the estimation of total carbon density using only the carbon fraction as a predictor is very precise, especially in sediments rich in organic matter. This method, however, depends critically on an accurate estimation of the two parameters of the Mixing Model (the bulk density of pure peat and the bulk density of pure mineral sediment). If these parameters are not estimated accurately, the calculation of total carbon density can be biased

Ancient inhabitants of the Basin of Mexico kept an accurate agricultural calendar using sunrise observatories and mountain alignments

In the hot dry spring of monsoon-driven environments, keeping an accurate calendar to regulate the annual planting of crops is of critical importance. Before the Spanish conquest, the Basin of Mexico had a highly productive farming system able to feed its very large population. However, how they managed to keep their farming dates in synchrony with the solar year is not known. In this paper, we show that the observation of sunrise against the Basin's eastern horizon could have provided an accurate solar calendar and that some important sunrise landmarks coincide well with the themes of seasonal festivities described in early codices. We also show that a long stone causeway in the summit of Mount Tlaloc aligns perfectly with the rising sun on February 23 to 24, in coincidence with the Basin's new year in the Mexica calendar. Third, we demonstrate that, when viewed from the sacred Mount Tepeyac in the bottom of the Basin, sunrise aligns with Mount Tlaloc also on February 24. The importance of Mount Tlaloc as a calendric landmark seems to be corroborated by illustrations and texts in ancient Mexica codices. Our findings demonstrate that by using carefully developed alignments with the rugged eastern horizon, the inhabitants of the Basin of Mexico were able to adjust their calendar to keep in synchrony with the solar year and successfully plan their corn harvests