Assessment of EST- and genomic microsatellite markers for variety discrimination and genetic diversity studies in wheat

It is likely that in the near future sequence information from sequencing programmes and EST libraries will generate an abundance of genic microsatellite markers. This study is focused on the assessment of their likely impact and performance vis-à-vis their genomic counterparts. Microsatellites from two sources were used to assess the genetic diversity in 56 old and new varieties of bread wheat on the UK Recommended List. A set of 12 microsatellite markers generated from genomic libraries and 20 expressed sequence tag (EST)-derived microsatellites were used in the study, and the performance of both marker sets assessed. The EST-derived or genic microsatellites delivered fingerprints of superior quality, amplifying clear products with few stutter bands. Diversity levels as revealed bygenic microsatellites are similar to the few published results. The PIC values for the genic markers were generally lower than those calculated for the genomic microsatellites, though advantages of both marker classes for variety identification applications are discussed. This revised version was published online in July 2006 with corrections to the Cover Date.     

Tillage, cover crops, and nitrogen fertilization effects on soil nitrogen and cotton and sorghum yields

Sustainable soil and crop management practices that reduce soil erosion and nitrogen (N) leaching, conserve soil organic matter, and optimize cotton and sorghum yields still remain a challenge. We examined the influence of three tillage practices (no-till, strip till and chisel till), four cover crops {legume [hairy vetch (Vicia villosa Roth)], nonlegume [rye (Secaele cereale L.)], vetch/rye biculture and winter weeds or no cover crop}, and three N fertilization rates (0, 60–65 and 120–130 kg N ha⁻¹) on soil inorganic N content at the 0–30 cm depth and yields and N uptake of cotton (Gossypium hirsutum L.) and sorghum [Sorghum bicolor (L.) Moench]. A field experiment was conducted on Dothan sandy loam (fine-loamy, siliceous, thermic, Plinthic Paleudults) from 1999 to 2002 in Georgia, USA. Nitrogen supplied by cover crops was greater with vetch and vetch/rye biculture than with rye and weeds. Soil inorganic N at the 0–10 and 10–30 cm depths increased with increasing N rate and were greater with vetch than with rye and weeds in April 2000 and 2002. Inorganic N at 0–10 cm was also greater with vetch than with rye in no-till, greater with vetch/rye than with rye and weeds in strip till, and greater with vetch than with rye and weeds in chisel till. In 2000, cotton lint yield and N uptake were greater in no-till with rye or 60 kg N ha⁻¹ than in other treatments, but biomass (stems + leaves) yield and N uptake were greater with vetch and vetch/rye than with rye or weeds, and greater with 60 and 120 than with 0 kg N ha⁻¹. In 2001, sorghum grain yield, biomass yield, and N uptake were greater in strip till and chisel till than in no-till, and greater in vetch and vetch/rye with or without N than in rye and weeds with 0 or 65 kg N ha⁻¹. In 2002, cotton lint yield and N uptake were greater in chisel till, rye and weeds with 0 or 60 kg N ha⁻¹ than in other treatments, but biomass N uptake was greater in vetch/rye with 60 kg N ha⁻¹ than in rye and weeds with 0 or 60 kg N ha⁻¹. Increased N supplied by hairy vetch or 120–130 kg N ha⁻¹ increased soil N availability, sorghum grain yield, cotton and sorghum biomass yields, and N uptake but decreased cotton lint yield and lint N uptake compared with rye, weeds or 0 kg N ha⁻¹. Cotton and sorghum yields and N uptake can be optimized and potentials for soil erosion and N leaching can be reduced by using conservation tillage, such as no-till or strip till, with vetch/rye biculture cover crop and 60–65 kg N ha⁻¹. The results can be applied in regions where cover crops can be grown in the winter to reduce soil erosion and N leaching and where tillage intensity and N fertilization rates can be minimized to reduce the costs of energy requirement for tillage and N fertilization while optimizing crop production.     

Cover crop effect on soil carbon fractions under conservation tillage cotton

Cover crops may influence soil carbon (C) sequestration and microbial biomass and activities by providing additional residue C to soil. We examined the influence of legume [crimson clover (Trifolium incarnatum L.)], nonlegume [rye (Secale cereale L.)], blend [a mixture of legumes containing balansa clover (Trifolium michelianum Savi), hairy vetch (Vicia villosa Roth), and crimson clover], and rye + blend mixture cover crops on soil C fractions at the 0–150 mm depth from 2001 to 2003. Active fractions of soil C included potential C mineralization (PCM) and microbial biomass C (MBC) and slow fraction as soil organic C (SOC). Experiments were conducted in Dothan sandy loam (fine-loamy, kaolinitic, thermic, Plinthic Kandiudults) under dryland cotton (Gossypium hirsutum L.) in central Georgia and in Tifton loamy sand (fine-loamy, siliceous, thermic, Plinthic Kandiudults) under irrigated cotton in southern Georgia, USA. Both dryland and irrigated cotton were planted in strip tillage system where planting rows were tilled, thereby leaving the areas between rows untilled. Total aboveground cover crop and cotton C in dryland and irrigated conditions were 0.72–2.90 Mg C ha⁻¹ greater in rye + blend than in other cover crops in 2001 but was 1.15–2.24 Mg C ha⁻¹ greater in rye than in blend and rye + blend in 2002. In dryland cotton, PCM at 50–150 mm was greater in June 2001 and 2002 than in January 2003 but MBC at 0–150 mm was greater in January 2003 than in June 2001. In irrigated cotton, SOC at 0–150 mm was greater with rye + blend than with crimson clover and at 0–50 mm was greater in March than in December 2002. The PCM at 0–50 and 0–150 mm was greater with blend and crimson clover than with rye in April 2001 and was greater with crimson clover than with rye and rye + blend in March 2002. The MBC at 0–50 mm was greater with rye than with blend and crimson clover in April 2001 and was greater with rye, blend, and rye + blend than with crimson clover in March 2002. As a result, PCM decreased by 21–24 g CO₂–C ha⁻¹ d⁻¹ but MBC increased by 90–224 g CO₂–C ha⁻¹ d⁻¹ from June 2001 to January 2003 in dryland cotton. In irrigated cotton, SOC decreased by 0.1–1.1 kg C ha⁻¹ d⁻¹, and PCM decreased by 10 g CO₂–C ha⁻¹ d⁻¹ with rye to 79 g CO₂–C ha⁻¹ d⁻¹ with blend, but MBC increased by 13 g CO₂–C ha⁻¹ d⁻¹ with blend to 120 g CO₂–C ha⁻¹ d⁻¹ with crimson clover from April 2001 to December 2002. Soil active C fractions varied between seasons due to differences in temperature, water content, and substrate availability in dryland cotton, regardless of cover crops. In irrigated cotton, increase in crop C input with legume + nonlegume treatment increased soil C storage and microbial biomass but lower C/N ratio of legume cover crops increased C mineralization and microbial activities in the spring.     

Watershed-scale responses to ozone events in a Pinus strobus L. plantation

High O₃ levels during the 1984 growing season in the southern Appalachian Mountains caused extensive damage to a 28 yr old white pine plantation on a 13.4 ha watershed at the Coweeta Hydrologic Laboratory. Ozone stress effects included premature senescence and loss of foliage, stimulation of pine seedling germination, reduced basal area increment, and small but measurable increases in NO₃ ^–-N and K⁺ concentrations in stream water. There were no observable effects of O₃ damage on nutrient concentrations of stemwood and foliage but net nutrient accumulation was reduced due to lower stemwood production. Ozone injury did not predispose trees to root pathogens or bark beetle infestations.     

The influence of storm characteristics on sulfate in precipitation

The effects of storm dynamics on precipitation chemistry were examined using an atmospheric budget for SO₄ ^? . One hundred storms occurring between 1975 and 1978 at Hubbard Brook Experimental Forest in New Hampshire were used as test data. Concentrations of major ions were usually greater in convective storms than in continuous or layer storms. For example the geometric mean concentrations of SO₄ ^? in convective and continuous storms were 4.1 and 1.1 mg L^?1, respectively. Higher SO₄ ^? concentrations also occurred when surface wind directions were south or southwest. The summer maximum in convective activity along with the seasonal dependence of surface wind directions and the seasonal atmospheric chemistry cycle can account for the summer maximum in SO₄ ^? concentrations observed in the northeastern United States.     

Pathogens as drivers of population declines: The importance of systematic monitoring in great apes and other threatened mammals

Until recently, the focus of great ape behavioural and ecological research has been distinct from the focus of scientists working in medical and veterinary sciences. More scientists are calling for a connection between medical and field research due to recent disease outbreaks in great apes, including Ebola, and indications of cross-transmission of Ebola and other viruses between primates and humans. A major limitation to progress is the lack of information on infectious diseases and their transmission in wild primates. Here, we present examples of successful pathogen detection in wild great apes and describe approaches and techniques that can be used in the field, focusing in particular on investigation of deaths and non-invasive sample collection. This interdisciplinary approach is providing new insights to infectious diseases of great apes and is helping to protect the health of great ape populations. This framework can also be applied to other mammals under threat from infectious diseases, including African wild dogs, seals and Tasmanian devils. In addition to providing benefits for great ape conservation, research that integrates infectious disease with primate ecology provides insights to emerging diseases in humans and the role of disease in primate evolution.     

A single IGF1 allele is a major determinant of small size in dogs

The domestic dog exhibits greater diversity in body size than any other terrestrial vertebrate. We used a strategy that exploits the breed structure of dogs to investigate the genetic basis of size. First, through a genome-wide scan, we identified a major quantitative trait locus (QTL) on chromosome 15 influencing size variation within a single breed. Second, we examined genetic variation in the 15-megabase interval surrounding the QTL in small and giant breeds and found marked evidence for a selective sweep spanning a single gene (IGF1), encoding insulin-like growth factor 1. A single IGF1 single-nucleotide polymorphism haplotype is common to all small breeds and nearly absent from giant breeds, suggesting that the same causal sequence variant is a major contributor to body size in all small dogs.