Soil alkaline phosphatase activity and bacterial phoD gene abundance and diversity under long-term nitrogen and manure inputs

Apel, 2007, Phosphate control of phoA, phoC and phoD gene expression in Streptomyces coelicolor reveals significant differences in binding of PhoP to their promoter regions, Microbiology, 153, 3527, 10.1099/mic.0.2007/007070-0

Appunu, 2006, Symbiotic effectiveness of acid-tolerant Bradyrhizobium strains with soybean in low pH soil, Afr. J. Biotechnol., 842

Boitt, 2018, Impacts of long-term plant biomass management on soil phosphorus under temperate grassland, Plant Soil, 427, 163, 10.1007/s11104-017-3429-0

Boitt, 2018, Plant biomass management impacts on short-term soil phosphorus dynamics in a temperate grassland, Biol. Fertil. Soils, 54, 397, 10.1007/s00374-018-1269-6

Burns, 1982, Enzyme activity in soil: location and a possible role in microbial ecology, Soil Biol. Biochem., 14, 423, 10.1016/0038-0717(82)90099-2

Cáceres, 2009, Associations between species and groups of sites: indices and statistical inference, Ecology, 90, 3566, 10.1890/08-1823.1

Chen, 2017, Response of soil phoD phosphatase gene to long-term combined applications of chemical fertilizers and organic materials, Appl. Soil Ecol., 119, 197, 10.1016/j.apsoil.2017.06.019

Chen, 2018, Responses of soil phosphorus availability to nitrogen addition in a legume and a non-legume plantation, Geoderma, 322, 12, 10.1016/j.geoderma.2018.02.017

Cho, 2005, Molecular cloning of a phytase gene (phy M) from Pseudomonas syringae MOK1, Curr. Opin. Microbiol., 51, 11, 10.1007/s00284-005-4482-0

Dufrêne, 1997, Species assemblages and indicator species: the need for a flexible asymmetrical approach, Ecol. Monogr., 67, 345

Edgar, 2013, UPARSE: highly accurate OTU sequences from microbial amplicon reads, Nat. Methods, 10, 996, 10.1038/nmeth.2604

FAO, F, 1988, UNESCO soil map of the world, revised legend, World Resour. Rep., 60, 138

Fox, 2014, The role of sulfur- and phosphorus-mobilizing bacteria in biochar-induced growth promotion of Lolium perenne, FEMS Microbiol. Ecol., 90, 78, 10.1111/1574-6941.12374

Fraser, 2015, Soil bacterial phoD gene abundance and expression in response to applied phosphorus and long-term management, Soil Biol. Biochem., 88, 137, 10.1016/j.soilbio.2015.04.014

Fraser, 2015, Linking alkaline phosphatase activity with bacterial phoD gene abundance in soil from a long-term management trial, Geoderma, 257–258, 115, 10.1016/j.geoderma.2014.10.016

Garg, 2008, Phosphorus availability to maize as influenced by organic manures and fertilizer P associated phosphatase activity in soils, Bioresour. Technol., 99, 5773, 10.1016/j.biortech.2007.10.063

George, 2018, Organic phosphorus in the terrestrial environment: a perspective on the state of the art and future priorities, Plant Soil, 427, 209, 10.1007/s11104-017-3488-2

Hartmann, 2014, Distinct soil microbial diversity under long-term organic and conventional farming, ISME J., 9, 1177, 10.1038/ismej.2014.210

Hasan, 2015, Computational study and homology modeling of phenol hydroxylase: key enzyme for phenol degradation, Int. J. Comput. Bioinfo. In. Silico. Model., 4, 691

Huang, 2009, Diversity of beta-propeller phytase genes in the intestinal contents of grass carp provides insight into the release of major phosphorus from phytate in nature, Appl. Environ. Microbiol., 75, 1508, 10.1128/AEM.02188-08

Jones, 2011, Solubilization of phosphorus by soil microorganisms, vol. 26, 169

Jorquera, 2014, Effect of nitrogen and phosphorus fertilization on the composition of rhizobacterial communities of two Chilean Andisol pastures, World J. Microbiol. Biotechnol., 30, 99, 10.1007/s11274-013-1427-9

Kuo, 1996, Phosphorus, 869

Lagos, 2016, Effect of phosphorus addition on total and alkaline phosphomonoesterase-harboring bacterial populations in ryegrass rhizosphere microsites, Biol. Fertil. Soils, 52, 1007, 10.1007/s00374-016-1137-1

Lidbury, 2017, The ‘known’ genetic potential for microbial communities to degrade organic phosphorus is reduced in low-pH soils, Microbiologyopen, 6, 10.1002/mbo3.474

Lin, 2018, Long-term application of lime or pig manure rather than plant residues suppressed diazotroph abundance and diversity and altered community structure in an acidic Ultisol, Soil Biol. Biochem., 123, 218, 10.1016/j.soilbio.2018.05.018

Liu, 2010, Long-term effect of chemical fertilizer, straw, and manure on soil chemical and biological properties in northwest China, Geoderma, 158, 173, 10.1016/j.geoderma.2010.04.029

Long, 2018, Phosphate levels influence the utilisation of rice rhizodeposition carbon and the phosphate-solubilising microbial community in a paddy soil, Soil Biol. Biochem., 118, 103, 10.1016/j.soilbio.2017.12.014

Lou, 2016, Complete genome sequence of Massilia sp. WG5, an efficient phenanthrene-degrading bacterium from soil, J. Biotechnol., 218, 49, 10.1016/j.jbiotec.2015.11.026

Luo, 2006, Elevated CO2 stimulates net accumulations of carbon and nitrogen in land ecosystems: a meta-analysis, Ecology, 87, 53, 10.1890/04-1724

Luo, 2017, Long-term fertilisation regimes affect the composition of the alkaline phosphomonoesterase encoding microbial community of a vertisol and its derivative soil fractions, Biol. Fertil. Soils, 53, 375, 10.1007/s00374-017-1183-3

Mandal, 2007, Effect of long-term application of manure and fertilizer on biological and biochemical activities in soil during crop development stages, Bioresour. Technol., 98, 3585, 10.1016/j.biortech.2006.11.027

Marklein, 2012, Nitrogen inputs accelerate phosphorus cycling rates across a wide variety of terrestrial ecosystems, New Phytol., 193, 696, 10.1111/j.1469-8137.2011.03967.x

Morrison, 2016, Microbial genetic and enzymatic responses to an anthropogenic phosphorus gradient within a subtropical peatland, Geoderma, 268, 119, 10.1016/j.geoderma.2016.01.008

Murphy, 1962, A modified single solution method for the determination of phosphate in natural waters, Anal. Chim. Acta, 27, 31, 10.1016/S0003-2670(00)88444-5

Muyzer, 1993, Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA, Appl. Environ. Microbiol., 59, 695, 10.1128/AEM.59.3.695-700.1993

Nannipieri, 2011, Role of phosphatase enzymes in soil, vol. 26, 215

Nash, 2014, Using organic phosphorus to sustain pasture productivity: a perspective, Geoderma, 221, 11, 10.1016/j.geoderma.2013.12.004

Neal, 2017, Land-use influences phosphatase gene microdiversity in soils, Environ. Microbiol., 19, 2740, 10.1111/1462-2920.13778

Ohtsubo, 2014, Complete genome sequence of Pseudomonas sp. strain TKP, isolated from a γ-hexachlorocyclohexane-degrading mixed culture, Genome Announc., 2

Olander, 2000, Regulation of soil phosphatase and chitinase activity by N and P availability, Biogeochemistry, 49, 175, 10.1023/A:1006316117817

Olsen, 1954, Estimation of available phosphorus in soils by extraction with sodium bicarbonate

Palmer, 2009, Genome-derived criteria for assigning environmental narG and nosZ sequences to operational taxonomic units of nitrate reducers, Appl. Environ. Microbiol., 75, 5170, 10.1128/AEM.00254-09

Ragot, 2015, phoD alkaline phosphatase gene diversity in soil, Appl. Environ. Microbiol., 81, 7281, 10.1128/AEM.01823-15

Ragot, 2016, Total and active microbial communities and phoD as affected by phosphate depletion and pH in soil, Plant Soil, 408, 15, 10.1007/s11104-016-2902-5

Richardson, 2009, Acquisition of phosphorus and nitrogen in the rhizosphere and plant growth promotion by microorganisms, Plant Soil, 321, 305, 10.1007/s11104-009-9895-2

Saha, 2008, Soil enzymatic activity as affected by long term application of farm yard manure and mineral fertilizer under a rainfed soybean-wheat system in N-W Himalaya, Eur. J. Soil Biol., 44, 309, 10.1016/j.ejsobi.2008.02.004

Sakurai, 2008, Analysis of bacterial communities on alkaline phosphatase genes in soil supplied with organic matter, Soil Sci. Plant Nutr., 54, 62, 10.1111/j.1747-0765.2007.00210.x

Santos-Beneit, 2015, The Pho regulon: a huge regulatory network in bacteria, Front. Microbiol., 6, 402, 10.3389/fmicb.2015.00402

Schloss, 2009, Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Appl. Environ. Microbiol., 75, 7537, 10.1128/AEM.01541-09

Schneijderberg, 2018, A genetically and functionally diverse group of non-diazotrophic Bradyrhizobium spp. colonizes the root endophytic compartment of Arabidopsis thaliana, BMC Plant Biol., 18, 61, 10.1186/s12870-018-1272-y

Spohn, 2013, Distribution of microbial-and root-derived phosphatase activities in the rhizosphere depending on P availability and C allocation-coupling soil zymography with 14 C imaging, Soil Biol. Biochem., 67, 106, 10.1016/j.soilbio.2013.08.015

Sun, 2015, Bacterial diversity in soils subjected to long-term chemical fertilization can be more stably maintained with the addition of livestock manure than wheat straw, Soil Biol. Biochem., 88, 9, 10.1016/j.soilbio.2015.05.007

Tabatabai, 1994, Soil enzymes, 775

Tan, 2013, Long-term phosphorus fertilisation increased the diversity of the total bacterial community and the phoD phosphorus mineraliser group in pasture soils, Biol. Fertil. Soils, 49, 661, 10.1007/s00374-012-0755-5

Tao, 2008, Phosphate-solubilizing and-mineralizing abilities of bacteria isolated from soils, Pedosphere, 18, 515, 10.1016/S1002-0160(08)60042-9

Vance, 1987, An extraction method for measuring soil microbial biomass C, Soil Biol. Biochem., 19, 703, 10.1016/0038-0717(87)90052-6

Vershinina, 2002, The Pho regulons of bacteria, Microbiology, 71, 497, 10.1023/A:1020547616096

Vitousek, 2010, Terrestrial phosphorus limitation: mechanisms, implications, and nitrogen-phosphorus interactions, Ecol. Appl., 20, 5, 10.1890/08-0127.1

Wang, 2006, Effect of long-term plastic film mulching and fertilization on inorganic N distribution and organic N mineralization in brown earth, J. Soil Water Conserv., 20, 107

Wang, 2012, Phosphorus pools and other soil properties in the rhizosphere of wheat and legumes growing in three soils in monoculture or as a mixture of wheat and legume, Plant Soil, 354, 283, 10.1007/s11104-011-1065-7

Widmer, 2006, Community structures and substrate utilization of bacteria in soils from organic and conventional farming systems of the DOK long-term field experiment, Appl. Soil Ecol., 33, 294, 10.1016/j.apsoil.2005.09.007

Yu, 2013, Diversity and abundance of phosphonate biosynthetic genes in nature, Proc. Natl. Acad. Sci. U. S. A., 110, 20759, 10.1073/pnas.1315107110

Zeng, 2016, Nitrogen fertilization directly affects soil bacterial diversity and indirectly affects bacterial community composition, Soil Biol. Biochem., 92, 41, 10.1016/j.soilbio.2015.09.018