High resolution in situ microsensor measurements of oxygen and temperature at a vesicomyid clam colony in the Japan Deep Sea Trench

Oxygen penetration depth and temperature at the rim of the clam colony was measured with a small deep-sea microprofiler module (Treude et al., 2009), carrying 3 oxygen Clark-type microelectrodes (Revsbech et al., 1980) and one temperature sensor (Pt100, UST Umweltsensorentechnik GmbH, Germany). High-resolution microprofiles across the sediment-water interface were measured with a vertical resolution of 100 µm on a total length of 15 cm. Oxygen electrodes had a linear response to the oxygen concentration in seawater and were calibrated in situ using constant readings in the bottom water (oxygen concentration determined by Winkler titration) and the anoxic parts of the sediment.

Middle Miocene to Quaternary diatoms in the Nankai Trough and Japan Trench

During Leg 87 of the Deep Sea Drilling Project, eleven holes were drilled at Sites 582 and 583 in the Nankai Trough, off Shikoku, southwestern Honshu, and three holes at Site 584 in the Japan Trench, off northeastern Honshu, Japan. In the former area, a low-latitude diatom zone called the Pseudoeunotia doliolus Zone is recognized in thick upper Quaternary sediments, which yield rare but characteristic admixtures of marine planktonic, marine tychopelagic-tobenthic, and nonmarine diatoms. In the latter area, all the sediments recovered contain abundant to common diatoms, allowing recognition of 12 continuous diatom zones from upper Quaternary through lower middle Miocene. Three hiatuses occur in this area around the Pleistocene/Pliocene boundary and in the upper and middle Miocene. In addition, 19 modified diatom zones for a lower Miocene through upper Quaternary interval are proposed. These middle-to-highlatitude zones are numerically coded (NPD1-NPD12) and represent the entire North Pacific. The establishment of these zones is based primarily on Leg 87 data and other DSDP materials and partially on several Japanese subaerial sequences. Correlation of the new zonal framework with previously established frameworks is attempted by the evaluation of operational usefulness of previously used datums. Resting spores of Chaetoceros and its related forms are recorded with specific intent for the first time, and possible ramifications of its frequency variation are presented. Nine new species are proposed: Delphineis sheshukovae Akiba n. sp., Denticulopsis praelauta Akiba and Koizumi n. sp., Kisseleviella ezoensis Akiba n. sp., Nitzschia umaoiensis Akiba n. sp., Thalassiosira jouseae Akiba n. sp., T. praenidulus Akiba n. sp., T. sancettae Akiba n. sp., T. umaoiensis Akiba n. sp., and T. urahoroensis Akiba n. sp. Transfers of systematic positions of the following four taxa are also proposed: Delphineis simonsenii (Mertz) Akiba n. comb., Ikebea tenuis (Brun) Akiba n. comb., Thalassiosira delicata (Barron) Akiba n. stat., and Thalassiothrixrobusta (Schrader) Akiba n. comb.

Mineralogy of cold seep sediment inhabited by vesicomyid clams in the Japan Deep Sea Trench

Sediment sampling was performed at the center of the clam colony. Immediately after sample recovery onboard, the sediment core was sub-sampled and preserved for later analyses. Pyrite and carbonate content of the sediment was measured by X-ray refraction analysis as previously described (Ertefai et al., 2010).

Sampling sites, sampled birds and plants of young larch plantations in Tokachi district, eastern Hokkaido, northern Japan, 2011

Models and data used to describe species-area relationships confound sampling with ecological process as they fail to acknowledge that estimates of species richness arise due to sampling. This compromises our ability to make ecological inferences from and about species-area relationships. We develop and illustrate hierarchical community models of abundance and frequency to estimate species richness. The models we propose separate sampling from ecological processes by explicitly accounting for the fact that sampled patches are seldom completely covered by sampling plots and that individuals present in the sampling plots are imperfectly detected. We propose a multispecies abundance model in which community assembly is treated as the summation of an ensemble of species-level Poisson processes and estimate patch-level species richness as a derived parameter. We use sampling process models appropriate for specific survey methods. We propose a multispecies frequency model that treats the number of plots in which a species occurs as a binomial process. We illustrate these models using data collected in surveys of early-successional bird species and plants in young forest plantation patches. Results indicate that only mature forest plant species deviated from the constant density hypothesis, but the null model suggested that the deviations were too small to alter the form of species-area relationships. Nevertheless, results from simulations clearly show that the aggregate pattern of individual species density-area relationships and occurrence probability-area relationships can alter the form of species-area relationships. The plant community model estimated that only half of the species present in the regional species pool were encountered during the survey. The modeling framework we propose explicitly accounts for sampling processes so that ecological processes can be examined free of sampling artefacts. Our modeling approach is extensible and could be applied to a variety of study designs and allows the inclusion of additional environmental covariates.

Ex situ sulphate reduction rates of sediment at the rim of a vesicomyd clam colony in the Japan Deep Sea Trench (dive 955)

Sediment samples were collected from the rim of a large vesicomyid clam colony in the Japan Deep Sea Trench. Immediately after sample recovery onboard, the sediment core was sub-sampled for ex situ rate measurements. Sulfate reduction were measured ex situ by the whole core injection method with three replicates. We incubated the samples at in situ temperature (1.5°C) for 48 hours with carrier-free 35SO4 (dissolved in water, 50 kBq). Sediment was fixed 20 ml ZnAc solution (20%, w/v) for AOM or SR. Turnover rates were measured as previously described (Kallmeyer et al., 2004).

Ex situ sulphate reduction rates of sediment at the rim of a vesicomyd clam colony in the Japan Deep Sea Trench (dive 957)

Sediment samples were collected from the rim of a large vesicomyid clam colony in the Japan Deep Sea Trench. Immediately after sample recovery onboard, the sediment core was sub-sampled for ex situ rate measurements. Sulfate reduction were measured ex situ by the whole core injection method with three replicates. We incubated the samples at in situ temperature (1.5°C) for 48 hours with carrier-free 35SO4 (dissolved in water, 50 kBq). Sediment was fixed 20 ml ZnAc solution (20%, w/v) for AOM or SR. Turnover rates were measured as previously described (Kallmeyer et al., 2004).