One of the most important issues needed to be studied to better understand global fluxes of marine organic matter is to resolve its molecular characteristics and mechanisms which convert fresh, labile biomolecules into semi-labile and refractory dissolved organic compounds (Jiao et al., 2010) which resist degradation for an average time of 5000 years (Bauer et al., 1992; Williams and Druffel, 1987). From a chemical point of view, the persistence of marine dissolved organic matter (DOM) is very unusual. The mostly oxygenand nutrient-rich oceanic water column should be conducive to a rapid microbial degradation of organic matter and subsequent release of CO2. Contrary to this expectation, however, a significant portion of the atmospheric carbon remains in the DOM of the oceans and circulates in global currents on long time scales. Despite the importance of gaining better insights into the molecular mechanisms affecting organic carbon dynamics, very little is known about these processes. Thus, recent reports from the intergovernmental panel on climate change (Denman et al., 2007) barely considered potential changes in quality, quantity and fluxes of marine organic matter. In the oceans, dissolved organic substances constitute an important source of organic carbon and organic nitrogen (Hansell et al., 2009). The pool of dissolved organic carbon (DOC) exceeds the amount of carbon stored in marine animals, plants and bacteria by a factor of about 200. The majority of DOM in the oceans is originally formed from CO2 by plankton and land plants during photosynthesis. The DOM, resulting from this organic material, is directly released into the water by marine plankton and during the degradation of these organisms. Also, DOM can be transported into the oceans via rivers and atmospheric deposits via aerosols. A small fraction of marine DOM, such as persistent organic pollutants or black carbon derivatives, can be derived from anthropogenic activities. DOM can bind to trace metals such as iron and is therefore also responsible for their distribution in the sea. The complex composition of DOM is an enormous analytical challenge, resulting in sparse information on chemical structures. The DOM complexity prevents resolution of single molecules by chromatographic separation or conventional mass spectrometry. However, within the last 10 years analytical instruments, which can deliver molecular signals, improved tremendously. Namely, improvements of nuclear magnetic resonance spectroscopy (NMR) and Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) opened a new analytical window for the molecular characterization of natural organic matter (e.g. Stenson et al., 2003; Kujawinski et al., 2004; Koch et al., 2005; Hertkorn et al., 2008; Witt et al., 2009). Meridional transits of polar research vessels offer a great opportunity to perform long-distance surface water transects with continuous water and air sampling, since frequent stops for long station work are usually not possible during such transit cruises. Trace metal (Pohl et al., 2011; Helmers, 1996) and plankton studies (Robinson et al., 2009) and a recent GEOTRACES pilot study in the Atlantic Ocean (Rutgers van der Loeff, 2007) are great examples for the importance of such projects. Previous work along the north–south transect also provided a high resolution comparison of bacterial and primary production (Hoppe et al., 2002). The authors suggested that the observed net heterotrophy required