The lion's share of bacteria in various environments cannot be cloned in the laboratory and thus cannot be sequenced using existing technologies. A major goal of single-cell genomics is to complement gene-centric metagenomic data with whole-genome assemblies of uncultivated organisms. Assembly of single-cell data is challenging because of highly non-uniform read coverage as well as elevated levels of sequencing errors and chimeric reads. We describe SPAdes, a new assembler for both single-cell and standard (multicell) assembly, and demonstrate that it improves on the recently released E+V-SC assembler (specialized for single-cell data) and on popular assemblers Velvet and SoapDeNovo (for multicell data). SPAdes generates single-cell assemblies, providing information about genomes of uncultivatable bacteria that vastly exceeds what may be obtained via traditional metagenomics studies. SPAdes is available online ( http://bioinf.spbau.ru/spades ). It is distributed as open source software.

SPAdes, a new genome assembly algorithm and its applications to single-cell sequencing ( 7th Annual SFAF Meeting, 2012)

Cause, conseguenze e strategie di mitigazione Proponiamo il primo di una serie di articoli in cui affronteremo l’attuale problema dei mutamenti climatici. Presentiamo il documento redatto, votato e pubblicato dall’Ipcc - Comitato intergovernativo sui cambiamenti climatici - che illustra la sintesi delle ricerche svolte su questo tema rilevante.

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Climate Change 2007: The Physical Science Basis.

Black carbon (BC) is an important pool of the global C cycle, because it cycles much more slowly than others and may even be managed for C sequestration. Using stable isotope techniques, we investigated the fate of BC applied to a savanna Oxisol in Colombia at rates of 0, 11.6, 23.2 and 116.1 t BC ha -1 , as well as its effect on non-BC soil organic C. During the rainy seasons of 2005 and 2006, soil respiration was measured using soda lime traps, particulate and dissolved organic C (POC and DOC) moving by saturated flow was sampled continuously at 0.15 and 0.3 m, and soil was sampled to 2.0 m. Black C was found below the application depth of 0-0.1 m in the 0.15-0.3 m depth interval, with migration rates of 52.4 ± 14.5, 51.8 ± 18.5 and 378.7 ± 196.9 kg C ha -1 yr -1 (± SE) where 11.6, 23.2 and 116.1 t BC ha -1 , respectively, had been applied. Over 2 years after application, 2.2% of BC applied at 23.2 t BCha -1 was lost by respiration, and an even smaller fraction of 1% was mobilized by percolating water. Carbon from BC moved to a greater extent as DOC than POC. The largest flux of BC from the field (20-53% of applied BC) was not accounted for by our measurements and is assumed to have occurred by surface runoff during intense rain events. Black C caused a 189% increase in aboveground biomass production measured 5 months after application (2.4-4.5 additional dry biomass ha -1 where BC was applied), and this resulted in greater amounts of non-BC being respired, leached and found in soil for the duration of the experiment. These increases can be quantitatively explained by estimates of greater belowground net primary productivity with BC addition.

Fate of soil applied black carbon: downward migration, leaching and soil respiration [Approved article]

Effects of different feedstocks-based biochar on soil remediation: A review

Global climate is undergoing significant changes due to extensive release of greenhouse gases (GHGs) such as CO2 and methane in the atmosphere. These gases are produced and released as a result of anthropogenic activities and fossil fuel burnings which also result in depletion of soil carbon resources. Biochar has various distinctive properties, which contribute to make it an effective, economical, and eco-friendly approach for soil carbon sequestration. The versatility in physicochemical properties of biochar provides an opportunity to optimize its efficacy to obtain desired benefits. A critical review of the literature indicates that biochar and plant growth-promoting microbes have the potential to improve soil organic carbon (SOC). Recent studies have depicted a significant role of the combined application of plant growth-promoting microbes and biochar on SOC dynamics. In future, these areas need to be explored as these have the potential to improve SOC dynamics and it could be a better strategy to sustain natural resources and ultimately mitigation of the climate change.

Role of biochar and plant growth promoting rhizobacteria to enhance soil carbon sequestration—a review

Patterns of soil microorganisms and enzymatic activities of various forest types in coastal sandy land

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Muhammad Waqqas Khan Tarin

Papers

Patterns of soil microorganisms and enzymatic activities of various forest types in coastal sandy land

Biochar: an efficient way to manage low water availability in plants.

Divergent consequences of different biochar amendments on carbon dioxide (CO2) and nitrous oxide (N2O) emissions from the red soil.

Soil liming effects on CH4, N2O emission and Cd, Pb accumulation in upland and paddy rice.

Which ornamental features of bamboo plants will attract the people most