Age-dependent variations in rumen bacterial community of Mongolian cattle from weaning to adulthood

BackgroundRumen microbes play an important role in ruminant energy supply and animal performance. Previous studies showed that the rumen microbiome of Mongolian cattle has adapted to degrade the rough forage to provide sufficient energy to tolerate the harsh desert ecological conditions. However, little is known about the succession of rumen microbes in different developmental stages of post-weaning Mongolian cattle.MethodsHere, we examined the succession of the rumen microbial composition and structure of 15 post-weaning Mongolian cattle at three developmental stages i.e., 5 months (RM05), 18 months (RM18) and, 36 months (RM36) by using the 16S rRNA gene sequencing method.ResultsWe did not find any age-dependent variations in the ruminal concentrations of any volatile fatty acid (VFA) of Mongolian cattle. The diversity of the rumen bacterial community was significantly lower in RM05 group, which reached to stability with age. Bacteroidetes and Firmicutes were the two dominant phyla among all age groups. Phylum Actinobacteria was significantly higher in RM05 group, phyla Spirochaetes, and Tenericutes were highly abundant in RM18 group, and phyla Proteobacteria and Epsilonbacteraeota were enriched in RM36 group. Genera Prevotella_1, Bacteroides, and Bifidobacterium were abundant in RM05 group. The short chain fatty acid (SCFA) producing bacteria Rikenellaceae_RC9_gut_group showed high abundance in RM18 group and fiber degrading genus Alloprevotella was highly abundant in RM36 group. Random forest analysis identified Alloprevotella, Ileibacterium, and Helicobacter as important age discriminatory genera. In particular, the genera Ruminococcaceae_UCG-005, Bacteroides, Saccharofermentans, and Fibrobacter in RM05, genera [Eubacterium] coprostanoligenes_group, Erysipelotrichaceae_UCG-004, Helicobacter, Saccharofermentans, Papillibacter, and Turicibacter in RM18, and genera Rikenellaceae_RC9_gut_group, Lachnospiraceae_AC2044_group, and Papillibacter in RM36 showed the top interactions values in the intra-group interaction network.ConclusionsThe results showed that rumen microbiota of Mongolian cattle reached to stability and maturity with age after weaning. This study provides some theoretical evidence about the importance of functional specific rumen bacteria in different age groups. Further studies are needed to determine their actual roles and interactions with the hos

A Novel Strategy to Screen Bacillus Calmette-Guérin Protein Antigen Recognized by γδ TCR

BACKGROUND: Phosphoantigen was originally identified as the main γδ TCR-recognized antigen that could activate γδ T cells to promote immune protection against mycobacterial infection. However, new evidence shows that the γδ T cells activated by phosphoantigen can only provide partial immune protection against mycobacterial infection. In contrast, whole lysates of Mycobacterium could activate immune protection more potently, implying that other γδ TCR-recognized antigens that elicit protective immune responses. To date, only a few distinct mycobacterial antigens recognized by the γδ TCR have been characterized. METHODOLOGY/PRINCIPAL FINDINGS: In the present study, we established a new approach to screen epitopes or protein antigens recognized by the γδ TCR using Bacillus Calmette-Guérin- (BCG-) specific γ TCR transfected cells as probes to pan a 12-mer random-peptide phage-displayed library. Through binding assays and functional analysis, we identified a peptide (BP3) that not only binds to the BCG-specific γδ TCR but also effectively activates γδ T cells isolated from human subjects inoculated with BCG. Importantly, the γδ T cells activated by peptide BP3 had a cytotoxic effect on THP-1 cells infected with BCG. Moreover, the oxidative stress response regulatory protein (OXYS), a BCG protein that matches perfectly with peptide BP3 according to bioinformatics analysis, was confirmed as a ligand for the γδ TCR and was found to activate γδ T cells from human subjects inoculated with BCG. CONCLUSIONS/SIGNIFICANCE: In conclusion, our study provides a novel strategy to identify epitopes or protein antigens for the γδ TCR, and provides a potential means to screen mycobacterial vaccines or candidates for adjuvant

Immunoglobulin gene insertions and deletions in the affinity maturation of HIV-1 broadly reactive neutralizing antibodies.

CAPRISA, 2014.Abstract available in pdf

A New Rule-Based Power-Aware Job Scheduler For Supercomputers

The fast processing speeds of the current generation of supercomputers provide a great convenience to scientists dealing with extremely large data sets. The next generation of exascale supercomputers could provide accurate simulation results for the automobile industry, aerospace industry, and even nuclear fusion reactors for the very first time. However, the energy cost of super-computing is extremely high, with a total electricity bill of 9 million dollars per year. Thus, conserving energy and increasing the energy efficiency of supercomputers have become critical in recent years. Many researchers have studied this problem and are trying to conserve energy by incorporating the dynamic voltage frequency scaling technique into their methods. However, this approach is limited, especially when the workload is high. In this paper, we developed a power-aware job scheduler by applying a rule-based control method and taking into consideration real-world power and speedup profiles to improve power efficiency while adhering to predetermined power constraints. The intensive simulation results showed that our proposed method is able to achieve the maximum utilization of computing resources as compared to baseline scheduling algorithms while keeping the energy cost under the threshold. Moreover, by introducing a power performance factor based on the real-world power and speedup profiles, we are able to increase the power efficiency by up to 75%

The yak

The yak are the mainstay of livelihood for the nomads on the vast Qinghai-Tibetan Plateau of western China and adjacent regions. Yak withstand the extreme condition of a harsh, cold climate at high elevations. Numbers of yak in China are around 13 million. There are a number of recognized breeds, and microsatellite DNA markers have started to show some genetic distances between them. To improve productivity, yak can be hybridized with local or exotic cattle for use at lower elevation. The males of these hybrids are sterile. Crosses of domestic with wild yak show improved size and vigor. Traditionally, yak are managed in a transhumance system dictated by the seasons, but since the 1990s this system has been breaking down as herders are given ownership of animals and rights to parcels of rangeland. One calf every two years is the norm, and most usually not before three years of age. Body weight of adult females varies somewhat among breeds and situations but is around 220 kg (bulls reaching twice that). Yak females may lose 25% of their body weight over winter into early spring due to both low temperature and shortage of feed. For pregnant cows over that period, this can have unfavorable consequences for calf survival. Milk production is seasonal and averages among breeds from 150 to 500 kg with a fat content from 5.4% to 7.5%. Feces of yak are collected and dried for use as fuel. Fiber yields are variable (from 0.5 to 2.9 kg depending on breed and location), but the most valuable component is the down, representing about 60% of the total fleece in calves but substantially less in adults

Detection and molecular characterization of J subgroup avian leukosis virus in wild ducks in China.

To assess the status of avian leukosis virus subgroup J (ALV-J) in wild ducks in China, we examined samples from 528 wild ducks, representing 17 species, which were collected in China over the past 3 years. Virus isolation and PCR showed that 7 ALV-J strains were isolated from wild ducks. The env genes and the 3'UTRs from these isolates were cloned and sequenced. The env genes of all 7 wild duck isolates were significantly different from those in the prototype strain HPRS-103, American strains, broiler ALV-J isolates and Chinese local chicken isolates, but showed close homology with those found in some layer chicken ALV-J isolates and belonged to the same group. The 3'UTRs of 7 ALV-J wild ducks isolates showed close homology with the prototype strain HPRS-103 and no obvious deletion was found in the 3'UTR except for a 1 bp deletion in the E element that introduced a binding site for c-Ets-1. Our study demonstrated the presence of ALV-J in wild ducks and investigated the molecular characterization of ALV-J in wild ducks isolates