Our analyses indicate that the divergence between AI and AII is approximately 1 %, represented by ~100,000 single nucleotide polymorphisms (SNP) distributed over the chromosomes with enrichment in variable genomic regions containing surface antigens.
The genomic proportion of surface-exposed cysteines was identified by (Marino et al., 2010) and used to compare the As- and P-sets to the MS proteome with Fisher's exact test.
Our approach places particular emphasis on surfacing genomic information using the recommended principles of shared standards [ 35] and "linked data", such that they can be easily accessed, downloaded and integrated with other datasets (e.g., environmental and ecological) to create new analyses.
In this work we developed an optimized strategy for the direct detection of DNA sequences in human genomic samples by a surface plasmon resonance imaging technology.
We usually extracted genomic DNA from the surface tissues as above, but in the case of samples from Sekisei Reef, genomic DNA was extracted not only from the surface tissues but also from skeletons.
However, in Alteromonas, there are also many examples of significant genomic exchange between the surface and deep clades and even with other species such as Alteromonas sp. SN2.
In addition to genomic variations, a variable surface antigen, Vmm, which undergoes reversible phase variation, has been discovered in M. mycoides subsp. mycoides SC [10].
A combination of complementary approaches to assess the kinetics of the appearance of each subset during development allowed us to obtain new insights into these terminal stages of differentiation, characterising their gene expression profiles at a pan-genomic level, their distinct surface receptor patterns and their prototypic effector functions.
Combing was performed using the Molecular Combing Apparatus™ (Institut Pasteur, Paris, France and Genomic Vision) on silanized surfaces[ 92].
Analyses on metagenomes collected in the water column of the Hawaii Ocean Time-series (HOT) station ALOHA revealed vertical zonation of protein functions [ 5], whereas the deep-sea community had greater metabolic versatility and genomic plasticity than sea-surface counterparts [ 13].
