Dataset Information

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments.

ABSTRACT: Agricultural land management, such as fertilization, liming, and tillage affects soil properties, including pH, organic matter content, nitrification rates, and the microbial community. Three different study sites were used to identify microorganisms that correlate with agricultural land use and to determine which factors regulate the relative abundance of the microbial signatures of the agricultural land-use. The three sites included in this study are the Broadbalk Experiment at Rothamsted Research, UK, the Everglades Agricultural Area, Florida, USA, and the Kellogg Biological Station, Michigan, USA. The effects of agricultural management on the abundance and diversity of bacteria and archaea were determined using high throughput, barcoded 16S rRNA sequencing. In addition, the relative abundance of these organisms was correlated with soil features. Two groups of microorganisms involved in nitrogen cycle were highly correlated with land use at all three sites. The ammonia oxidizing-archaea, dominated by Ca. Nitrososphaera, were positively correlated with agriculture while a ubiquitous group of soil bacteria closely related to the diazotrophic symbiont, Bradyrhizobium, was negatively correlated with agricultural management. Analysis of successional plots showed that the abundance of ammonia oxidizing-archaea declined and the abundance of bradyrhizobia increased with time away from agriculture. This observation suggests that the effect of agriculture on the relative abundance of these genera is reversible. Soil pH and NH3 concentrations were positively correlated with archaeal abundance but negatively correlated with the abundance of Bradyrhizobium. The high correlations of Ca. Nitrososphaera and Bradyrhizobium abundances with agricultural management at three long-term experiments with different edaphoclimatic conditions allowed us to suggest these two genera as signature microorganisms for agricultural land use.

SUBMITTER: Zhalnina K

PROVIDER: S-EPMC3640186 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments.

Zhalnina Kateryna K de Quadros Patricia D PD Gano Kelsey A KA Davis-Richardson Austin A Fagen Jennie R JR Brown Christopher T CT Giongo Adriana A Drew Jennifer C JC Sayavedra-Soto Luis A LA Arp Dan J DJ Camargo Flavio A O FA Daroub Samira H SH Clark Ian M IM McGrath Steve P SP Hirsch Penny R PR Triplett Eric W EW

Frontiers in microbiology 20130501

Agricultural land management, such as fertilization, liming, and tillage affects soil properties, including pH, organic matter content, nitrification rates, and the microbial community. Three different study sites were used to identify microorganisms that correlate with agricultural land use and to determine which factors regulate the relative abundance of the microbial signatures of the agricultural land-use. The three sites included in this study are the Broadbalk Experiment at Rothamsted Rese ...[more]

PMID: 23641242

Similar Datasets

Project description:Agricultural long-term experiments (LTEs) are an important research infrastructure for agriculture, plant and soil sciences. The aim of this metadata compilation is to make LTEs easier to find and to facilitate networking. LTEs are here defined as agricultural experiments with a minimum duration of 20 years and research in the context of soil and yield. An extensive literature review was conducted to identify LTEs in Europe exclusive of Germany, because Germany's LTEs were published before. Sources were scientific papers as well as other articles, books, trial guides and websites. The following information was searched for and compiled in this dataset, if available: site and name of the LTE, start and end (if appropriate), holding institution, type of land use (e.g. field crops or grassland), research theme, website (if available), participation in networks, measured parameters, farming category (i.e. conventional or organic), size of the LTE area, longitude and latitude of the LTE, experimental setup including factors, treatments, randomization and replication, number of plots, size of the plots, crop rotation, soil type, substrate, texture, literature which was written in the context of the LTE data, and AGROVOC keywords. LTE from the following countries are included: Austria, Belarus, Belgium, Bulgaria, Czech Republic, Denmark, Estonia, Finland, France, Great Britain, Hungary, Italy, Moldova, Norway, Poland, Romania, Serbia, Slovenia, Spain, Sweden, Switzerland, Ukraine. In total, 186 LTEs could be identified. The LTEs were classified according to the following research themes: fertilization, tillage, crop rotation, other. The majority of LTEs have the research theme "fertilization" (n = 125). Thirty LTEs have the research theme "crop rotation", 26 LTEs have the research theme "tillage", and 26 LTEs have "other" research themes. The following networks could be identified: GLTEN (Global long-term experiment network), ILTER (International long-term ecological research), IOSDV (International Organic Nitrogen Fertilization Experiment), NLFT (National Long-term Fertilization Trials, Hungary), RetiBio 2 (Italy). The oldest LTE was set up 1843, but the largest number of LTEs was established in the second half of the 20th century. Most of the LTEs are held by a scientific institution, i.e. 88 LTEs are held by a non-university scientific institution and 81 LTEs are held by a university or university of applied sciences. The link to the holding institution is provided whenever possible to facilitate contacting.

Project description:Declines in bird populations in agricultural regions of North America and Europe have been attributed to agricultural industrialization, increases in use of agrochemical application, and increased predation related to habitat modification. Based on count data compiled from Breeding Bird Survey (BBS) from 1974 to 2012, Christmas Bird Count (CBC) collected from 1914 to 2013, and hunter data from Annual Game Take Survey (AGTS) for years 1948-2010, ring-necked pheasants (Phasianus colchicus) in California have experienced substantial declines in agricultural environments. Using a modeling approach that integrates all three forms of survey data into a joint response abundance index, we found pheasant abundance was related to the amount of harvested and unharvested crop land, types of crops produced, amount of total pesticide applied, minimum temperature, precipitation, and numbers of avian competitors and predators. Specifically, major changes in agricultural practices over the last three decades were associated with declines in pheasant numbers and likely reflected widespread loss of habitat. For example, increases in cropland were associated with increased pheasant abundance during early years of study but this effect decreased through time, such that no association in recent years was evidenced. A post hoc analysis revealed that crops beneficial to pheasant abundance (e.g., barley) have declined substantially in recent decades and were replaced by less advantageous crops (e.g., nut trees). An additional analysis using a restricted data set (1990-2013) indicated recent negative impacts on pheasant numbers associated with land use practices were also associated with relatively high levels of pesticide application. Our results may provide valuable information for management policies aimed at reducing widespread declines in pheasant populations in California and may be applicable to other avian species within agricultural settings. Furthermore, this general analytical approach is not limited to pheasants and could be applied to other taxa for which multiple survey data sources exist.

Dataset Information

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments.

Publications

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets