Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms
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...…transcription among soils from various 323 depths has also been previously observed in Svalbard peat soils, but this environment is quite 324 different and is also characterized by low fungal biomass and oxygen limitation (Tveit et al., 2013; 325 Tveit et al., 2014), which our soils did not have....
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...Currently, however, there exist only a few published 80 metatranscriptomic studies from soils (Nacke et al., 2014; Tveit et al., 2013; Tveit et al., 2014), and 81 the understanding of soil functioning based on these studies is still fragmentary....
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...Differences in microbial transcription among soils from various 323 depths has also been previously observed in Svalbard peat soils, but this environment is quite 324 different and is also characterized by low fungal biomass and oxygen limitation (Tveit et al., 2013; 325 Tveit et al., 2014), which our soils did not have....
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Cites methods or result from "Organic carbon transformations in h..."
...cDNA synthesis was performed as described before (Radax et al., 2012; Tveit et al., 2013)....
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...…acid extraction, cDNA synthesis and sequencing Nucleic acids were extracted from 5 g of mineral soil and 1.2 g of litter and peat and processed as The ISME Journal previously described (Urich et al., 2008). cDNA synthesis was performed as described before (Radax et al., 2012; Tveit et al., 2013)....
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...Arctic peat soils were sampled as described in the study by Tveit et al. (2013)....
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...Raw reads were processed as described in the study by Tveit et al. (2013)....
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...Although the fraction of SSU rRNA originating from protists is comparably small in metatranscriptomes, recent studies showed that the sequencing depth even with 454 pyrosequencing yielded sizable datasets of protist SSU rRNAs (Urich et al., 2008; Turner et al., 2013; Tveit et al., 2013)....
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"Organic carbon transformations in h..." refers methods in this paper
...SSU ribo-tags assigned to the order Methylococcales were assembled into ribo-contigs using CAP3 (Huang and Madan, 1999), using two subsequent rounds of assembly with (1) a minimum overlap of 150 bp with a minimum similarity threshold of 99% and mismatch and gap scores of 130 and 150, and (2)…...
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...SSU ribo-tags assigned to the order Methylococcales were assembled into ribo-contigs using CAP3 (Huang and Madan, 1999), using two subsequent rounds of assembly with (1) a minimum overlap of 150 bp with a minimum similarity threshold of 99% and mismatch and gap scores of 130 and 150, and (2) minimum overlap of 150 bp and minimum 97% similarity threshold, respectively....
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