University of Georgia

About: University of Georgia is a education organization based out in Athens, Georgia, United States. It is known for research contribution in the topics: Population & Gene. The organization has 41934 authors who have published 93622 publications receiving 3713212 citations. The organization is also known as: UGA & Franklin College.

Human-specific loss of regulatory DNA and the evolution of human-specific traits.

Abstract: Humans differ from other animals in many aspects of anatomy, physiology, and behaviour; however, the genotypic basis of most human-specific traits remains unknown. Recent whole-genome comparisons have made it possible to identify genes with elevated rates of amino acid change or divergent expression in humans, and non-coding sequences with accelerated base pair changes. Regulatory alterations may be particularly likely to produce phenotypic effects while preserving viability, and are known to underlie interesting evolutionary differences in other species. Here we identify molecular events particularly likely to produce significant regulatory changes in humans: complete deletion of sequences otherwise highly conserved between chimpanzees and other mammals. We confirm 510 such deletions in humans, which fall almost exclusively in non-coding regions and are enriched near genes involved in steroid hormone signalling and neural function. One deletion removes a sensory vibrissae and penile spine enhancer from the human androgen receptor (AR) gene, a molecular change correlated with anatomical loss of androgen-dependent sensory vibrissae and penile spines in the human lineage. Another deletion removes a forebrain subventricular zone enhancer near the tumour suppressor gene growth arrest and DNA-damage-inducible, gamma (GADD45G), a loss correlated with expansion of specific brain regions in humans. Deletions of tissue-specific enhancers may thus accompany both loss and gain traits in the human lineage, and provide specific examples of the kinds of regulatory alterations and inactivation events long proposed to have an important role in human evolutionary divergence.

Finite-size scaling at first-order phase transitions

Abstract: Using thermodynamic fluctuation theory, we study the finite-size rounding of anomalies occurring at first-order phase transitions of the corresponding infinite system. Explicit expressions for thermodynamic functions are derived both for "symmetric transitions" (such as the jump of the spontaneous magnetization in the Ising model from $+{M}_{\mathrm{sp}}$ to $\ensuremath{-}{M}_{\mathrm{sp}}$ as the field changes from ${0}^{+}$ to ${0}^{\ensuremath{-}}$) as well as for asymmetric cases, but restricting attention to (hyper)cubic system shapes. As an explicit example for the usefulness of these considerations in Monte Carlo simulations where it may be a problem to (i) locate a phase transition and (ii) distinguish first-order from second-order transitions, we present numerical results for the two-dimensional nearest-neighbor Ising ferromagnet in a field, both below the critical temperature ${T}_{c}$ and at ${T}_{c}$. The numerical results are found to be in very good agreement with the phenomenological theory and it is shown that one may extract the magnitudes of jumps occurring at first-order phase transitions in a well-defined and accurate way.

An active DNA transposon family in rice

Abstract: The publication of draft sequences for the two subspecies of Oryza sativa (rice), japonica (cv. Nipponbare) and indica (cv. 93-11)1,2, provides a unique opportunity to study the dynamics of transposable elements in this important crop plant. Here we report the use of these sequences in a computational approach to identify the first active DNA transposons from rice and the first active miniature inverted-repeat transposable element (MITE) from any organism. A sequence classified as a Tourist-like MITE of 430 base pairs, called miniature Ping (mPing), was present in about 70 copies in Nipponbare and in about 14 copies in 93-11. These mPing elements, which are all nearly identical, transpose actively in an indica cell-culture line. Database searches identified a family of related transposase-encoding elements (called Pong), which also transpose actively in the same cells. Virtually all new insertions of mPing and Pong elements were into low-copy regions of the rice genome. Since the domestication of rice mPing MITEs have been amplified preferentially in cultivars adapted to environmental extremes—a situation that is reminiscent of the genomic shock theory for transposon activation3.

Phenolic Content and Antioxidant Capacity of Muscadine Grapes

Abstract: Fruits of 10 cultivars of muscadine grapes (five bronze skin and five purple skin) grown in southern Georgia were separated into skin, seed, and pulp. Each fruit part and the leaves from the corresponding varieties were extracted for HPLC analysis of major phenolics. Total phenolics were determined colorimetrically using Folin−Ciocalteu reagent. Total anthocyanins were determined according to a pH-differential method, using a UV−visible spectrophotometer. Antioxidant capacity was determined by the Trolox equivalent antioxidant capacity (TEAC) assay. Gallic acid, (+)-catechin, and epicatechin were the major phenolics in seeds, with average values of 6.9, 558.4, and 1299.4 mg/100 g of fresh weight (FW), respectively. In the skins, ellagic acid, myricetin, quercetin, kaempferol, and trans-resveratrol were the major phenolics, with respective average values of 16.5, 8.4, 1.8, 0.6, and 0.1 mg/100 g of FW. Contrary to previous results, ellagic acid and not resveratrol was the major phenolic in muscadine grapes....