The Lena River integrates biogeochemical signals from its vast drainage basin, and the integrated signal reaches far out over the Arctic Ocean. Transformation of riverine organic carbon (OC) into mineral carbon, and mineral carbon into the organic form in the Lena River watershed, can be considered to be quasi-steady-state processes. An increase in Lena discharge exerts opposite effects on total organic (TOC) and total inorganic (TCO₂) carbon: TOC concentration increases, while TCO₂ concentration decreases. Significant inter-annual variability in mean values of TCO₂, TOC, and their sum (total carbon, TC) has been found. This variability is determined by changes in land hydrology which cause differences in the Lena River discharge. There is a negative correlation in the Lena River between TC in September and its mean discharge in August; a time shift of about one month is required for water to travel from Yakutsk to the Laptev Sea. Total carbon entering the sea with the Lena discharge is estimated to be almost 10 Tg C yr⁻¹. The annual Lena River discharge of particulate organic carbon (POC) can be as high as 0.38 Tg (moderate to high estimate). If we instead accept Lisytsin's (1994) statement that 85–95 % of total particulate matter (PM) (and POC) precipitates on the marginal "filter", then only about 0.03–0.04 Tg of Lena River POC reaches the Laptev Sea. The Lena's POC export would then be two orders of magnitude less than the annual input of eroded terrestrial carbon onto the shelf of the Laptev and East Siberian seas, which is estimated to be about 4 Tg. Observations support the hypothesis of a dominant role for coastal erosion (Semiletov, 1999a, b) in East Siberian Arctic Shelf (ESAS) sedimentation and the dynamics of the carbon/carbonate system. The Lena River is characterized by relatively high concentrations of the primary greenhouse gases, dissolved carbon dioxide (CO₂) and methane (CH₄). During all seasons the river is supersaturated in CO₂ compared to the atmosphere, by up to 1.5–2 fold in summer, and 4–5 fold in winter. This results in a significant CO₂ supersaturation in the adjacent coastal sea. Localized areas of dissolved CH₄ along the Lena River and in the Lena delta channels may reach 100 nM, but the CH₄ concentration decreases to 5–20 nM towards the sea, which suggests that riverborne export of CH₄ plays but a minor role in determining the ESAS CH₄ budget in coastal waters. Instead, the seabed appears to be the source that provides most of the CH₄ to the Arctic Ocean.

Shelf seas are among the most active biogeochemical marine environments and the East Siberian Sea is a prime example. This sea is supplied by seawater from both the Atlantic and Pacific Oceans and has a substantial input of river runoff. All of these waters contribute chemical constituents, dissolved and particulate, but of different signatures. Sea ice formation during the winter season and melting in the summer has a major impact on physical as well as biogeochemical conditions. The internal circulation and water mass distribution is significantly influenced by the atmospheric pressure field. The western region is dominated by input of river runoff from the Laptev Sea and an extensive input of terrestrial organic matter. The microbial decay of this organic matter produces carbon dioxide (CO₂) that oversaturates all waters from the surface to bottom relative to atmospheric level, even when primary production, inferred from low surface water nutrients, has occurred. The eastern surface waters were under-saturated with respect to CO₂ illustrating the dominance of marine primary production. The drawdown of dissolved inorganic carbon equals a primary production of ~0.8 ± 2 mol C m⁻², which when multiplied by half the area of the East Siberian Sea, ~500 000 km², results in an annual primary production of 0.4 (± 1) × 10¹² mol C or ~4 (± 10) × 10¹² gC. Microbial decay occurs through much of the water column, but dominates at the sediment interface where the majority of organic matter ends up, thus more of the decay products are recycled to the bottom water. High nutrient concentrations and fugacity of CO₂ and low oxygen and pH were observed in the bottom waters. Another signature of organic matter decomposition, methane (CH₄), was observed in very high but variable concentrations. This is due to its seabed sources of glacial origin or modern production from ancient organic matter, becoming available due to sub-sea permafrost thaw and formation of so-called taliks. The decay of organic matter to CO₂ as well as oxidation of CH₄ to CO₂ contribute to a natural ocean acidification making the saturation state of calcium carbonate low, resulting in under-saturation of all the bottom waters with respect to aragonite and large areas of under-saturation down to 50 % with respect to calcite. Hence, conditions for calcifying organisms are very unfavorable.

This study aims to improve understanding of carbon cycling in the Buor-Khaya Bay (BKB) and adjacent part of the Laptev Sea by studying the inter-annual, seasonal, and meso-scale variability of carbon and related hydrological and biogeochemical parameters in the water, as well as factors controlling carbon dioxide (CO₂) emission. Here we present data sets obtained on summer cruises and winter expeditions during 12 yr of investigation. Based on data analysis, we suggest that in the heterotrophic BKB area, input of terrestrially borne organic carbon (OC) varies seasonally and inter-annually and is largely determined by rates of coastal erosion and river discharge. Two different BKB sedimentation regimes were revealed: Type 1 (erosion accumulation) and Type 2 (accumulation). A Type 1 sedimentation regime occurs more often and is believed to be the quantitatively most important mechanism for suspended particular matter (SPM) and particulate organic carbon (POC) delivery to the BKB. The mean SPM concentration observed in the BKB under a Type 1 regime was one order of magnitude greater than the mean concentration of SPM (~ 20 mg L⁻¹) observed along the Lena River stream in summer 2003. Loadings of the BKB water column with particulate material vary by more than a factor of two between the two regimes. Higher partial pressure of CO₂ (pCO₂), higher concentrations of nutrients, and lower levels of oxygen saturation were observed in the bottom water near the eroded coasts, implying that coastal erosion and subsequent oxidation of eroded organic matter (OM) rather than the Lena River serves as the predominant source of nutrients to the BKB. Atmospheric CO₂ fluxes from the sea surface in the BKB vary from 1 to 95 mmol m⁻² day⁻¹ and are determined by specific features of hydrology and wind conditions, which change spatially, seasonally, and inter-annually. Mean values of CO₂ emission from the shallow Laptev Sea were similar in September 1999 and 2005 (7.2 and 7.8 mmol m⁻² day⁻¹, respectively), while the CO₂ efflux can be one order lower after a strong storm such as in September 2011. Atmospheric CO₂ emissions from a thawed coastal ice complex in the BKB area varied from 9 to 439 mmol m⁻² day⁻¹, with the mean value ranged from 75.7 to 101 mmol m⁻² day⁻¹ in two years (September 2006 and 2009), suggesting that at the time of observations the eroded coastal area served as a more significant source of CO₂ to the atmosphere than the tundra (mean value: 22.7 mmol m⁻² day⁻¹) on the neighboring Primorsky coastal plain (September 2006). The observed increase in the Lena River discharge since the 1990s suggests that increased levels of "satellite-derived" annual primary production could be explained by an increasing load of humic acids delivered to shelf water; in this water the color resulting from the presence of CDOM (colored dissolved organic matter) mimics the color resulting from the presence of Chl a when seen from space. Because the BKB area can be employed as an integrator of ongoing changes in the surrounding environment, we suggest that under ongoing changes, more nutrients, products of eroded OC transformation and river transport, will be delivered to the Arctic Ocean with its shrinking ice cover, potentially increasing primary production outside of the shallow East Siberian Arctic Shelf (ESAS). At the same time, because the ESAS is characterized by very low transparency which limits euphotic layer thickness, excessive pCO₂ will not be utilized by photosynthesis but will rather be emitted to the atmosphere at increasing rates, affecting regional CO₂ balance.