Abundance and Activity of 16S rRNA, AmoA and NifH Bacterial Genes During Assisted Phytostabilization of Mine Tailings

References

• Anawar HM, Canha N, Santa-Regina I, Freitas MC. 2013. Adaptation, tolerance, and evolution of plant species in a pyrite mine in response to contamination level and properties of mine tailings: sustainable rehabilitation. J Soils Sediments 13:730–741.
   Web of Science ®Google Scholar
• Bradshaw AD, Hüttl RF. 2001. Future minesite restoration involves a broader approach. Ecol Eng 17:87–90.
   Web of Science ®Google Scholar
• Epelde L, Becerril JM, Mijangos I, Garbisu C. 2009. Evaluation of the efficiency of a phytostabilization process with biological indicators of soil health. J Environ Qual 38:2041–2049.
   PubMed Web of Science ®Google Scholar
• Ferris MJ, Muyzer G, Ward DM. 1996. Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community. App Environ Microbiol 62:340–346.
   PubMed Web of Science ®Google Scholar
• Ginocchio R, de la Fuente LM, Sanchez P, Bustamante E, Silva Y, Urrestarazu P, Rodriguez PH. 2009. Soil acidification as a confounding factor on metal phytotoxicity in soils spiked with copper-rich mine wastes. Environ Toxicol Chem 28:2069–2081.
   PubMed Web of Science ®Google Scholar
• Glick BR. 2004. Bacterial ACC deaminase and the alleviation of plant stress. Adv Appl Microbiol 56:291–312.
   PubMed Web of Science ®Google Scholar
• Gómez-Sagasti MT, Alkorta I, Becerril JM, Epelde L, Anza M, Garbisu C. 2012. Microbial monitoring of the recovery of soil quality during heavy metal phytoremediation. Water, Air, Soil Pollut 223:3249–3262.
   Web of Science ®Google Scholar
• Hinsinger P, Plassard C, Tang C, Jaillard B. 2003. Origins of root-mediated pH changes in the rhizosphere and their responces to environmental constraints: a review. Plant Soil 248:43–59.
   Web of Science ®Google Scholar
• Huang L, Baumgartl T, Mulligan D. 2012. Is rhizosphere remediation sufficient for sustainable revegetation of mine tailings? Ann Bot 110:223–238.
   PubMed Web of Science ®Google Scholar
• Huang L, Tang F, Song Y, Wan C, Wang S, Liu W, Shu WS. 2011. Biodiversity, abundance, and activity of nitrogen-fixing bacteria during primary succession on a copper mine tailings. FEMS Microbiol Ecol 78:439–450.
   PubMed Web of Science ®Google Scholar
• Janssen PH. 2006. Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Appl Environ Microbiol 72:1719–1728.
   PubMed Web of Science ®Google Scholar
• Kowalchuk GA, Stephen JR. 2001. Ammonia-oxidizing bacteria: a model for molecular microbial ecology. Annu Rev Microbiol 55:485–529.
   PubMed Web of Science ®Google Scholar
• Libus J, Storchova H. 2006. Quantification of cDNA generated by reverse transcription of total RNA provides a simple alternative tool for quantitative RT-PCR normalization. Biotechniques 41:156–162.
   PubMed Web of Science ®Google Scholar
• Mendez MO, Glenn EP, Maier RM. 2007. Phytostabilization potential of quailbush for mine tailings: growth, metal accumulation, and microbial community changes. J Environ Qual 36:245–253.
   PubMed Web of Science ®Google Scholar
• Mendez MO, Maier RM. 2008. Phytostabilization of mine tailings in arid and semiarid environments-An emerging remediation technology. Environ Health Perspectives 116:278–283.
   PubMed Web of Science ®Google Scholar
• Mendez MO, Neilson JW, Maier RM. 2008. Characterization of a bacterial community in an abandoned semiarid lead-zinc mine tailing site. Appl Environ Microbiol 74:3899–3907.
   PubMed Web of Science ®Google Scholar
• Meza-Figueroa D, Maier RM, de la O-Villanueva M, Gómez-Alvarez A, Moreno-Zazueta A, Rivera J, Campillo A, Grandlic CJ, Anaya R, Palafox-Reyes J. 2009. The impact of unconfined mine tailings in residential areas from a mining town in a semi-arid environment: Nacozari, Sonora, Mexico. Chemosphere 77:140–147.
   PubMed Web of Science ®Google Scholar
• Moynahan OS, Zabinski CA, Gannon JE. 2002. Microbial community structure and carbon-utilization diversity in mine tailings revegetation study. Restoration Ecol 10:77–87.
   Web of Science ®Google Scholar
• Neilson JW, Zhang L, Veres TA, Chandler KB, Neilson CH, Crispin JD, Pemberton JE, Maier RM. 2010. Cadmium effects on transcriptional expression of rhlB/rhlC genes and congener distribution of monorhamnolipid and dirhamnolipid in Pseudomonas aeruginosa IGB83. Appl Microbiol Biotechnol 88:953–963.
   PubMed Web of Science ®Google Scholar
• Poly F, Monrozier LJ, Bally R. 2001. Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil. Res Microbiol 152:95–103.
   PubMed Web of Science ®Google Scholar
• Rotthauwe JH, Witzel KP, Liesack W. 1997. The ammonia monooxygenase structural gene amoA as a functional marker: molecular fine-scale analysis of natural ammonia-oxidizing populations. Appl Environ Microbiol 63:4704–4712.
   PubMed Web of Science ®Google Scholar
• Sahrawat KL. 2008. Factors affecting nitrification in soils. Commun Soil Sci Plant Anal 39:1436–1446.
   Web of Science ®Google Scholar
• Schaider LA, Senn DB, Brabander DJ, McCarthy KD, Shine JP. 2007. Characterization of zinc, lead and cadmium in mine waste: Implications for transport, exposure, and bioavailability. Environ Sci Technol 41:4164–4171.
   PubMed Web of Science ®Google Scholar
• Schippers A, Breuker A, Blazejak A, Bosecker K, Kock D, Wright TL. 2010. The biogeochemistry and microbiology of sulfidic mine waste and bioleaching dumps and heaps, and novel Fe(II)-oxidizing bacteria. Hydrometallurgy 104:342–350.
   Web of Science ®Google Scholar
• Sessitsch A, Kuffner M, Kidd P, Vangronsveld J, Wenzel WW, Fallmann K, Puschenreiter M. 2013. The role of plant-associated bacteria in the mobilization and phytoextraction of trace elements in contaminated soils. Soil Biol Biochem 60:182–194.
   PubMed Web of Science ®Google Scholar
• Shu WS, Ye ZH, Zhang ZQ, Lan CY, Wong MH. 2005. Natural colonization of plants on five lead/zinc mine tailings in southern China. Restoration Ecol 13:49–60.
   Web of Science ®Google Scholar
• Solís-Domínguez FA, Valentin-Vargas A, Chorover J, Maier RM. 2011. Effect of arbuscular mycorrhizal fungi on plant biomass and the rhizosphere microbial community structure of mesquite grown in acidic lead/zinc mine tailings. Sci Total Environ 409:1009–1016.
   PubMed Web of Science ®Google Scholar
• Solís-Domínguez FA, White SA, Borillo-Hutter T, Amistadi MK, Root RA, Chorover J, Maier RM. 2012. Response of key soil parameters during compost-assisted phytostabilization in extremely acidic tailings: effect of plant species. Environ Sci Technol 46:1019–1027.
   PubMed Web of Science ®Google Scholar
• Stephen JR, Chang YJ, Macnaughton SJ, Kowalchuk GA, Leung KT, Flemming CA, White DC. 1999. Effect of toxic metals on indigenous soil p-subgroup proteobacterium ammonia oxidizer community structure and protection against toxicity by inoculated metal-resistant bacteria. Appl Environ Microbiol 65:95–101.
   PubMed Web of Science ®Google Scholar
• Wiegleb G, Felinks B. 2001. Predictability of early stages of primary succession in post-mining landscapes of Lower Lusatia, Germany. Appl Veg Sci 4:5–18.
   Web of Science ®Google Scholar
• Wessén E, Hallin S. 2011. Abundance of archaeal and bacterial ammonia oxidizers – possible bioindicator for soil monitoring. Ecol Indic 11:1696–1698.
   Web of Science ®Google Scholar
• Wong M. 2003. Ecological restoration of mine degraded soils, with emphasis on metal contaminated soils. Chemosphere 50:775–780.
   PubMed Web of Science ®Google Scholar
• Yarwood S, Brewer E, Yarwood R, Lajtha K, Myrold D. 2012. Soil microbe active community composition and capacity of responding to litter addition after 12 years of no inputs. Appl Environ Microbiol 79:1385–1392.
   PubMed Web of Science ®Google Scholar
• Zeglin LH, Taylor AE, Myrold DM, Bottomley PJ. 2011. Bacterial and archaeal amoA gene distribution covaries with soil nitrification properties across a range of land uses. Environ Microbiol Rep 3:717–726.
   PubMed Web of Science ®Google Scholar