Nematode diversity and distribution in the southern maritime Antarctic—clues to history?

Nematode worms are one of the most important soil faunal groups in Antarctica. However, relatively little is known about their wider distribution, biogeography and history in the region, and taxonomic information remains confused or incomplete. Here, we hypothesise that the Alexander Island (southern maritime Antarctic) fauna includes elements that have survived (at least) the period of Pleistocene glaciation in situ, forming a regional centre of endemism and biodiversity hotspot. We describe nematological surveys carried out across a latitudinal gradient between 68 and 77°S along the southern Antarctic Peninsula, comparing the data obtained with the maritime Antarctic fauna described in the few previous studies between northern Marguerite Bay and the South Orkney Islands (60-68°S). In general, our survey supports previous findings of a lack of overlap at species level between the maritime and continental Antarctic biogeographical zones, with the large majority of specimens obtained from all survey sites being attributable to known maritime or new and currently endemic taxa. However, collections from Alexander Island, Alamode Island and the most westerly site sampled, Charcot Island, include specimens morphologically very close to two known continental Antarctic species, which may indicate a link between the two regions. The fauna obtained at the northern study sites (ca. 68°S, Adelaide Island, Marguerite Bay) closely matches that described previously. However, in contrast with widely described patterns of decreasing diversity in other Antarctic biota, species richness increased markedly at locations on Alexander Island (ca. 72°S), including a substantial element of undescribed species (50% of taxa across all locations, 40% of taxa found on Alexander Island). Finally, the most southerly samples obtained, from inland nunataks in Ellsworth Land (75-77°S), indicate a fauna that does not include nematodes, which is exceptional not only in an Antarctic context but also for soils worldwide.     

Community level physiological profile response to plant residue additions in Antarctic soils

Changes in microbial community-level physiological profiles (CLPP) were investigated during decomposition of plant materials in maritime Antarctic soils from Alexander Island and Signy Island. For each soil, a series of microcosms were established and half of them amended with Deschampsia antarctica residues and the other half left unamended (controls). Microcosms were destructively sampled at regular intervals and a soil suspension from each microcosm was used to inoculate BIOLOG EcoPlates. The results showed differences between samples due to the treatment (amendment) but no systematic changes due to incubation period. Microbial response in terms of the overall BIOLOG activity in FB soils was greater than in JC and increased in the former during plant decomposition whilst the overall activity of the JC soils remained relatively unchanged. The differences in the microbial community response to plant amendment between FB and JC may be related to the C:N ratio of these soils and to differences in the way in which the different microbial communities respond to sporadic resource inputs.     

The drivers of soil bacterial communities in rubber plantation at local and geographic scales

ABSTRACT

According to traditional biogeographic theory, historical contingency can influence soil microbial communities. Thus, we ask: are historical contingencies (soil profiles and geographic sampling locations), or other factors (seasonal changes and soil nutrients), important drivers of soil bacterial communities? This study used high throughput sequencing technology to investigate the soil bacterial compositions of rubber plantations at the local and geographic scales. Significant differences were detected in bacterial compositions between two study locations, Xishuangbanna and Hainan Island. Redundancy analysis showed that the most important factor driving bacterial composition was site location and total nitrogen, which explained 38.2 and 38.4% the total variance, respectively; this indicates that historical contingencies drive distinct bacterial communities in rubber plantation soils. At the local scale, there were also distinct differences in soil bacterial compositions between the dry and rainy season in both the Xishuangbanna and Hainan sites. Seasonal changes explained 13.6 and 41.4% of the total variation of soil bacterial composition in Xishuangbanna and on Hainan Island, respectively, whereas other factors had little effect on soil bacterial communities (p < 0.001). In conclusion, our results demonstrate that historical contingencies drive variation in bacterial composition at the geographic scale, whereas seasonal changes influence variation at the local scale.     

Fungal diversity in soils and historic wood from the Ross Sea Region of Antarctica

Microorganisms play a dominant role in Antarctic ecosystems, yet little is known about how fungal diversity differs at sites with considerable human activity as compared to those that are remote and relatively pristine. Ross Island, Antarctica is the site of three historic expedition huts left by early explorers to the South Pole, Robert F. Scott and Ernest Shackleton. The fungal diversity of these wooden structures and surrounding soils was investigated with traditional culturing methods as well as with molecular methodology including denaturing gradient gel electrophoresis (DGGE) using the internal transcribed spacer (ITS) regions of ribosomal DNA for identification. From historic wood and artifact samples and soils adjacent to the huts as well as soil samples obtained from the Lake Fryxell Basin, a remote Dry Valley location, and remote sites at Mt. Fleming and the Allan Hills, 71 fungal taxa were identified. The historic huts and associated artifacts have been colonized and degraded by fungi to various extents. The most frequently isolated fungal genera from the historic woods sampled include Cadophora, Cladosporium and Geomyces. Similar genera were found in soil samples collected near the huts. Sampling of soils from locations in the Transantarctic Mountains and Lake Fryxell Basin at considerable distances from the huts and with different soil conditions revealed Cryptococcus spp., Epicoccum nigrum and Cladosporium cladosporioides as the most common fungi present and Cadophora species less commonly isolated. DGGE revealed 28 taxa not detected by culturing including four taxa which possibly have not been previously described since they have less than 50% ITS sequence identity to any GenBank accessions. Fungi capable of causing degradation in the wood and artifacts associated with the expedition huts appear to be similar to those present in Antarctic soils, both near and at more remote locations. These species of fungi are likely indigenous to Antarctica and were apparently greatly influenced by the introduction of organic matter brought by early explorers. Considerable degradation has occurred in the wood and other materials by these fungi.     

南极半岛海洋气候区的土壤Ⅵ.空间可变性与土壤景观

本文通过对南极海洋气候区自然环境和地表特征分析,指出本区土被发育与分布具有明显的不连续性特征;同时,在分析研究本区成土因素的空间变化格局及其对土壤发生、发育与演化影响的基础上,论述了南极海洋气候区土壤属性上的强烈空间可变性和类型上的高度分异性;最后,对本区有代表性的土壤景观系列进行了分析,指出成土因素空间变异的微域性特点造成了本区土壤景观的多样性与复杂性,本区自然环境的快速变化可能最终导致土壤景观的演变与重塑。     

Soil- and enantiomer-specific metabolism of amino acids and their peptides by Antarctic soil microorganisms

Most nitrogen (N) enters many Arctic and Antarctic soil ecosystems as protein. Soils in these polar environments frequently contain large stocks of proteinaceous organic matter, which has decomposed slowly due to low temperatures. In addition to proteins, considerable quantities of d-amino acids and their peptides enter soil from bacteria and lengthy residence times can lead to racemisation of l-amino acids in stored proteins. It has been predicted that climate warming in polar environments will lead to increased rates of soil organic N turnover (i.e. amino acids and peptides of both enantiomers). However, our understanding of organic N breakdown in these soils is very limited. To address this, we tested the influence of chain length and enantiomeric composition on the rate of breakdown of amino acids and peptides in three contrasting tundra soils formed under the grass, moss or lichen-dominated primary producer communities of Signy Island in the South Orkney Islands. Both d- and l-enantiomers of the amino acid monomer were rapidly mineralized to CO₂ at rates in line with those found for l-amino acids in many other terrestrial ecosystems. In all three soils, l-peptides were decomposed faster than their amino acid monomer, suggesting a different route of microbial assimilation and catabolism. d-peptides followed the same mineralization pattern as l-peptides in the two contrasting soils under grass and lichens, but underwent relatively slow decomposition in the soil underneath moss, which was similar to the soil under the grass. We conclude that the decomposition of peptides of l-amino acids may be widely conserved amongst soil microorganisms, whereas the decomposition of peptides of d-amino acids may be altered by subtle differences between soils. We further conclude that intense competition exists in soil microbial communities for the capture of both peptides and amino acids produced from protein breakdown.     

南极半岛海洋气候区的土壤Ⅳ.分类问题

本文简要论述了早期南极土壤分类研究工作。对在南极海洋性气候区应用《美国土壤系统分类》和《国际土壤分类参比基础》进行土壤分类工作的最新实践进行了阐述和比较;同时,依照《中国土壤系统分类》对本区进行了初步的分类尝试。研究结果显示,南极海洋性气候区的主要土壤分别属于《美国土壤系统分类》冻土纲下的各级单元。比较而言,其他两个分类系统在本区的应用相对困难。     

稻秸对土壤细菌群落分子多态性的影响

模拟稻秸原位还田条件,分别在水稻土和红壤中添加水稻秸秆培养70d ,第0、5、2 5、4 5、70天采集土样。采用非机械破壁法直接提取水稻土和红壤细菌总DNA ,水稻土细菌总DNA经过二次纯化;红壤细菌总DNA经过一次纯化后,PCR扩增其16SrDNAV3可变区,均可获得清晰的目的条带,对扩增产物进行DGGE分析,结果显示:水稻土和红壤样品的DGGE条带增加,说明稻秸能够增加土壤细菌群落分子多态性的丰富度,随着培养期的延长,施有稻秸的处理中土壤细菌群落多态性的变化远远复杂于空白对照土壤中的细菌群落变化;同时发现在稻秸刺激下不同土壤细菌群落多态性高峰期出现时间不同     

A preliminary study of the growth of fungi and bacteria from temperate and antarctic soils in relation to temperature

The growth of fungi isolated from a lowland temperate site (Roudsea Wood National Nature Reserve), an upland temperate moorland (Moor House National Nature Reserve) and an oceanic Antarctic island (Signy, S. Orkneys) was compared at 1, 14 and 25°C. This showed that low temperatures caused greatest retardation of growth in fungi from the warmest site (Roudsea) and least from the coldest site (Signy Island). At Moor House, fungi which were isolated most frequently in winter were able to grow better at 1°C than summer forms. The fungal flora of Signy Island was restricted and consists of cold tolerant cosmopolitan species which have been selected by or become adapted to the prevailing low temperatures. Of fungi isolated from any two of the sites, Mortierella alpina and Mucor hiemalis showed temperature adaptation correlated with prevailing site temperature, while Trichoderma viride, Penicillium thomii, and P. frequentans showed no adaptation.     

气候条件和作物对黑土和潮土固氮微生物群落多样性的影响

固氮微生物是土壤氮素的主要贡献者之一。利用在黑龙江海伦(寒温带)、河南封丘(暖温带)和江西鹰潭(中亚热带)设置的2种农田土壤(黑土、潮土)的置换试验,研究了不同气候、土壤和种植条件对固氮微生物多样性的影响。通过直接从土壤中提取DNA,对固氮酶基因nifH PCR扩增并进行DGGE电泳的分析方法研究了2种类型土壤在3种不同水热条件下固氮微生物群落多样性的变化特征。研究结果表明,在置换到不同气候条件下3年后,土壤类型是决定固氮微生物结构及多样性的主要影响因子,其次是短期气候条件变化的影响,最后是种植玉米的影响。土壤固氮微生物多样性、优势度与土壤C/N及碱解氮含量呈显著正相关(p<0.01),与pH呈显著负相关;多元回归分析及典范对应分析均表明土壤碱解氮含量是影响固氮微生物多样性的决定因素。水热条件与土壤固氮微生物多样性没有线性相关关系,暖温带条件下黑土固氮微生物多样性最高,而潮土最低。种植玉米提高了土壤固氮微生物多样性。     

南极半岛海洋气候区的土壤Ⅶ. 矿物学特性

南极海洋气候区岩石风化和土壤形成过程中有明显的原生矿物蚀变作用和自生矿物成矿作用。本文以粗骨寒冻灰化土和石灰性扰动冻土两种有代表性的土壤类型为例,阐述了本区土壤矿物学特征。指出铝氧化物、绿泥石、碳酸盐是本区玄武岩类风化物质上发育土壤中的主要自生矿物类型,蒙脱石、特别是绿泥-蒙脱石混层矿物是南极海洋气候区土壤粘粒部分的特征矿物。不同土壤由于成土环境、成土过程、成土历史的差异,其土壤物质的矿物学组成、含量、形态、分布具有明显不同。土壤发生性铁氧化物与成土作用和土壤过程密切相关,其矿物类型、含量、形态特征、分布模式在不同的土壤中明显不同,是表征土壤发育程度与剖面形态表达的有效指标。     

Hexadecane mineralization activity in hydrocarbon-contaminated soils of Ross Sea region Antarctica may require nutrients and inoculation

Hydrocarbon spills on Antarctic soils occur mainly near settlements where fuel is stored and aircraft and vehicles are refuelled. To investigate those factors that may preclude hexadecane mineralization activity in long-term hydrocarbon-contaminated soils from the Ross Sea Region, samples were collected from Scott Base, the site of former bases (Cape Evans, Marble Point, Vanda Station), and two oil spill sites in the Wright Valley (Bull Pass and Loop Moraine). The soils had low levels of nitrogen (<0.1% total N) and a high C/N ratio (>24) reflecting hydrocarbon contamination. Following soil water adjustment to 10% (v/w), the influence of nutrient addition (250 mg/kg N added as monoammonium phosphate) and inoculation (spiking with Antarctic soil containing high numbers of hydrocarbon degraders) as required on hexadecane mineralization activity was determined. Hexadecane mineralization activity occurred in contaminated soils from Marble Point, Cape Evans and one sample from Vanda Station without nutrient addition. In contrast soils from Scott Base, Cape Evans, another sample from Vanda Station and Loop Moraine required nutrients, whereas Bull Pass soil required inoculation and nutrients before hexadecane mineralization proceeded. Hydrocarbon degrader numbers were highest in coastal soils from Scott Base and Marble Point (10⁷ per gram) and less prevalent in inland soils from Wright Valley (<10⁵ per gram). The bacterial community structure of the soils differed between sites, but soils from the same sites tended to cluster together more closely, except for those from Vanda Station. Addition of nutrients did not cause large shifts in the soil bacterial communities. Results from this study indicate that hydrocarbon degradation may occur at some sites in summer when water is available. Long-term hydrocarbon-contaminated Antarctic soils may provide a valuable resource of hydrocarbon-degrading bacteria that can serve as inocula for more recent oil spills on land.     

Rhizosphere bacterial community composition in natural stands of Carex arenaria (sand sedge) is determined by bulk soil community composition

The relative importance of specific plant properties versus soil characteristics in shaping the bacterial community structure of the rhizosphere is a topic of considerable debate. Here, we report the results of a study on the bacterial composition of the rhizosphere of the wild plant Carex arenaria (sand sedge) growing at 10 natural sites in The Netherlands. The soil properties of the sandy soils at these sites were highly disparate, most notably in pH, chloride and organic matter content. Rhizosphere and bulk soil bacterial communities were examined by culture-independent means, namely, 16S rDNA-directed PCR-DGGE profiling. Large differences were observed between the bacterial communities of the different sites for both bulk and rhizosphere soil. Cluster analysis of bacterial profiles revealed that the rhizosphere community of each site was generally more closely related to the bulk soil community of that site rather than to rhizosphere communities of other sites. Hence, bacterial community structure within the rhizosphere of C. arenaria appeared to be determined to a large extent by the bulk soil community composition. This conclusion was supported by a reciprocal planting experiment, where C. arenaria shoots of different sites yielded highly similar rhizosphere communities when planted in the same soil.     

南极半岛海洋气候区的土壤Ⅷ.鸟成土

以强烈生物活动参与和外源有机质输入为发生学基础、以鸟粪矿化与下部岩石层磷化作用为主要发生学过程的鸟成土在南极海洋气候区广泛分布,形成独特的海岸带土壤景观。本文对南极海洋气候区内鸟成土的发生学特点、剖面形态特征、新成矿物主要类型及其发生机制进行了论述;对鸟成土随栖息地遗弃向残积鸟成土演变的过程进行了阐述。在上述基础上,论述了本区内鸟成土在发生、发育与演化过程中相对于南极其他地区鸟成土所表现的特殊性。     

南极半岛海洋气候区的土壤Ⅴ.气候变化响应

气候变化导致南极海洋气候区冰川消退、多年积雪融化,为新的土壤形成与分布提供了潜在的母质基础与发展空间;地表和土壤内部水分活动在时间和空间上的加强促进了以自由水为基础的土壤过程和冰缘地貌过程;由气候变化引发的低等植物生境、群落结构变化、初级生产力与生物量的提高、海洋脊椎动物迁徙和栖息地的变迁,影响了本区土壤有机质积累过程以及土壤有机质结构与性状。已有的证据表明,气候变化正对南极海洋气候区土壤发生、发育及演变产生重要影响。     

南极半岛海洋气候区的土壤Ⅱ.有机质积累过程

南极海洋性气候土壤形成过程中具有明显的有机质积累作用,有机质对成土过程和土壤性状产生重要影响,如土壤酸化、有机-金属螯合物的形成和生物成矿现象。受地表生物活动强弱影响,不同土壤有机C、N含量差异明显。冻扰作用、灰化作用以及物理性裂隙渗漏是有机质在剖面的迁移和重新分配的主要途径。     

Long-term effects of organic and synthetic soil fertility amendments on soil microbial communities and the development of southern blight

The effects of tillage and soil fertility amendments on the relationship between the suppressiveness of soils to southern blight and soil physical, chemical and biological factors were examined in experimental station plots in North Carolina. Main plots were either tilled frequently or surface-mulched after one initial tillage. Organic soil amendments including composted cotton gin trash, composted poultry manure, an incorporated rye-vetch green manure, or synthetic fertilizer were applied to subplots in a split-plot design experiment. Incidence of southern blight was lower in surfaced-mulched than tilled soils. Incidence of southern blight was also lower in soils amended with cotton gin trash than those amended with poultry manure, rye-vetch green manure or synthetic fertilizer. Soil water content was negatively correlated with the incidence of disease in both years. Disease incidence was negatively correlated with the level of potassium, calcium, cation exchange capacity (CEC), base saturation (BS) and humic matter in 2002, and net mineralizable nitrogen in 2001. Although, populations of thermophilic organisms were significantly higher in soils amended with cotton gin trash than the other three fertility amendments in each year, there was no significant correlation between the populations of thermophiles and incidence of the disease. Bacterial community diversity indices based on community-level physiological profiling (CLPP) and denaturing gradient gel electrophoresis (DGGE) were significantly higher in soils amended with cotton gin trash than those amended with poultry manure, green manure or synthetic fertilizer. There was a significant negative correlation between the incidence of southern blight, and CLPP and DGGE diversity indices. Greater differences in the richness of bacterial functional groups than genotypes were observed. These results demonstrate that organic soil fertility amendments and cotton gin trash in particular, reduced the development of the disease and affected soil physical, chemical and biological parameters.     

Effects of vegetational type and soil depth on soil microbial communities on the Loess Plateau of China

Soil microbial communities are very sensitive to changes in land use and are often used as indicators of soil fertility. We evaluated the microbial communities in the soils of four types of vegetation (cropland (CP), natural grassland (NG), broadleaf forest (BF) and coniferous forest (CF)) at depths of 0–10 and 10–20 cm on the Loess Plateau in China using phospholipid fatty acid (PLFA) profiling and denaturing gradient gel electrophoresis (DGGE) of DNA amplicons from polymerase chain reactions. The soil microbial communities were affected more by vegetation type than by soil depth. Total organic carbon, total nitrogen, soil-water content, pH, bulk density (BD) and C:N ratio were all significantly associated with the composition of the communities. Total PLFA, bacterial PLFA and fungal PLFA were significantly higher in the BF than the CP. The DGGE analyses showed that NG had the most diverse bacterial and fungal communities. These results confirmed the significant effect of vegetation type on soil microbial communities. BFs and natural grass were better than the CFs for the restoration of vegetation on the Loess Plateau.     

Capacity of fatty acid profiles and substrate utilization patterns to describe differences in soil microbial communities associated with increased salinity or alkalinity at three locations in South Australia

 Fatty acid methyl ester (FAME) profiles, together with Biolog substrate utilization patterns, were used in conjunction with measurements of other soil chemical and microbiological properties to describe differences in soil microbial communities induced by increased salinity and alkalinity in grass/legume pastures at three sites in SE South Australia. Total ester-linked FAMEs (EL-FAMEs) and phospholipid-linked FAMEs (PL-FAMEs), were also compared for their ability to detect differences between the soil microbial communities. The level of salinity and alkalinity in affected areas of the pastures showed seasonal variation, being greater in summer than in winter. At the time of sampling for the chemical and microbiological measurements (winter) only the affected soil at site 1 was significantly saline. The affected soils at all three sites had lower organic C and total N concentrations than the corresponding non-affected soils. At site 1 microbial biomass, CO₂-C respiration and the rate of cellulose decomposition was also lower in the affected soil compared to the non-affected soil. Biomarker fatty acids present in both the EL- and PL-FAME profiles indicated a lower ratio of fungal to bacterial fatty acids in the saline affected soil at site 1. Analysis of Biolog substrate utilization patterns indicated that the bacterial community in the affected soil at site 1 utilized fewer carbon substrates and had lower functional diversity than the corresponding community in the non-affected soil. In contrast, increased alkalinity, of major importance at sites 2 and 3, had no effect on microbial biomass, the rate of cellulose decomposition or functional diversity but was associated with significant differences in the relative amounts of several fatty acids in the PL-FAME profiles indicative of a shift towards a bacterial dominated community. Despite differences in the number and relative amounts of fatty acids detected, principal component analysis of the EL- and PL-FAME profiles were equally capable of separating the affected and non-affected soils at all three sites. Redundancy analysis of the FAME data showed that organic C, microbial biomass, electrical conductivity and bicarbonate-extractable P were significantly correlated with variation in the EL-FAME profiles, whereas pH, electrical conductivity, NH₄-N, CO₂-C respiration and the microbial quotient were significantly correlated with variation in the PL-FAME profiles. Redundancy analysis of the Biolog data indicated that cation exchange capacity and bicarbonate-extractable K were significantly correlated with the variation in Biolog substrate utilization patterns. Received: 8 March 2000     

Physiological, biochemical and molecular responses of the soil microbial community after afforestation of pastures with Pinus radiata

Afforestation and deforestation are key land-use changes across the world, and are considered to be dominant factors controlling ecosystem functioning and biodiversity. However, the responses of soil microbial communities to these land-use changes are not well understood. Because changes in soil microbial abundance and community structure have consequences for nutrient cycling, C-sequestration and long-term sustainability, we investigated impacts of land-use change, age of stand and soil physico-chemical properties on fungal and bacterial communities and their metabolic activities. This study was carried out at four sites in two geographical locations that were afforested on long-established pastures with Pinus radiata D. Don (pine). Two of the sites were on volcanic soils and two on non-volcanic soils and stand age ranged from 5 to 20 y. Microbial communities were analysed by biochemical (phospho-lipid fatty acids; PLFA) and molecular (multiplex-terminal restriction fragment length polymorphism; M-TRFLP) approaches. Both site and stand age influenced microbial properties, with changes being least detectable in the 5-y-old stand. Land use was a key factor influencing soil metabolic activities as measured by physiological profiling using MicroResp. Pasture soils had higher microbial biomass (P < 0.001), and metabolic activities (P < 0.001), and basal respiration rates were up to 2.8-times higher than in the pine soils. Microbial abundance analysis by PLFA showed that the fungal to bacterial ratio was higher in the pine soils (P < 0.01). Community analysis suggested that soil bacterial communities were more responsive to site (principal component 1; P < 0.001) than to land use (principal component 5; P < 0.001). In contrast, the fungal community was more affected by land-use change (principal component 1; P < 0.001) than by site, although site still had some influence on fungal community structure (principal component 2; P < 0.001). Redundancy analysis also suggested that bacterial and fungal communities responded differently to various soil abiotic properties, land-use change and location of sites. Overall, our results indicate that the change in land use from pasture to P. radiata stands had a direct impact on soil fungal communities but an indirect effect, through its effects on soil abiotic properties, on bacterial communities. Most of the changes in bacterial communities could be explained by altered soil physico-chemical properties associated with afforestation of pastures.