The Cotton Catchment Communities Cooperative Research Centre began during a period of rapid uptake of Bollgard II^® cotton, which contains genes to express two Bt proteins that control the primary pests of cotton in Australia, Helicoverpa armigera and H. punctigera. The dramatic uptake of this technology presumably resulted in strong selection pressure for resistance in Helicoverpa spp. against the Bt proteins. The discovery of higher than expected levels of resistance in both species against one of the proteins in Bollgard II^® cotton (Cry2Ab) led to significant re-evaluation of the resistance management plan developed for this technology, which was a core area of research for the Cotton CRC. The uptake of Bollgard II^® cotton also led to a substantial decline in pesticide applications against Helicoverpa spp. (from 10–14 to 0–3 applications per season). The low spray environment allowed some pests not controlled by the Bt proteins to emerge as more significant pests, especially sucking species such as Creontiades dilutus and Nezara viridula. A range of other minor pests have also sporadically arisen as problems. Lack of knowledge and experience with these pests created uncertainty and encouraged insecticide use, which threatened to undermine the gains made with Bollgard II^® cotton. Here we chronicle the achievements of the Cotton CRC in providing the industry with new knowledge and management strategies for these pests.

Knowing the yarn-strength performance potential of cotton fibre is advantageous to spinners during mill preparation, and to researchers developing new genotypes and management strategies to produce better fibre. Standard High Volume Instrument (HVI) fibre quality attributes include micronaire (a combined measure of fibre linear density and maturity) and bundle tensile properties. While these attributes relate well to yarn strength, alternative fibre quality attributes may better explain the variation in yarn strength. Two field experiments over two seasons were conducted to assess the fibre and yarn performance of some Australian cotton genotypes. The aim was to assess and compare alternative measures for micronaire, and to compare bundle and single-fibre tensile measurements, and assess the relative yarn-strength predictive performance of these attributes. Specific fibre measurement comparisons were for linear density (double-compression Fineness Maturity Tester (FMT) and gravimetric), maturity ratio (FMT, polarised light, calculated, and cross-sectional), and tensile properties (HVI bundle and Favimat Robot single fibre). Multiple linear regression models for yarn strength that included yarn manufacturing variables and standard HVI fibre quality parameters performed well (standard error of prediction (SEP) 2.40 cN tex^–1). Multiple linear regression models performed better when alternatives to micronaire were used, e.g. using gravimetric linear density (SEP, 2.15 cN tex^–1) or laser photometric determined ribbon width (SEP 1.71 cN tex^–1). Yarn strength models were also better when single fibre tensile properties were substituted for bundle tensile properties (SEP 1.07 cN tex^–1). The substitution of alternative fineness variables for micronaire or single-fibre strength for bundle strength in a simple fibre quality index also improved the prediction of yarn strength.

We review here research on semiochemicals for cotton pest management carried out in successive Cotton Co-operative Research Centres from 1998 to 2012. Australian cotton is now dominated by transgenic (Bt) varieties, which provide a strong platform for integrated pest management of key pests such as Helicoverpa spp., but new technologies are required to manage the development of resistance in Helicoverpa spp. to transgenic cotton and the problems posed by emerging and secondary pests, especially sucking insects. A long-range attractant for Helicoverpa moths, based on plant volatiles, has been commercialised as Magnet^®. The product has substantial area-wide impacts on moth populations, and only limited effects on beneficial insects. Potential roles are being investigated for this product in resistance management of Helicoverpa spp. on transgenic cotton. Short-range, non-volatile compounds on organ surfaces of plants that do not support development of Helicoverpa spp. have been identified; these compounds deter feeding or oviposition, or are toxic to insect pests. One such product, Sero X^®, is effective on Helicoverpa spp. and sucking pests such as whiteflies (Bemisia tabaci), green mirids (Creontiades dilutus), and other hemipteran insects, and is in the advanced stages of commercialisation.

Three decades of disease survey data have shown Verticillium wilt was one of the first major diseases of cotton recorded in the 1984–85 season. Survey reports the mean incidence was 4.1% in the 1984–85 season and rose to 16.6% in the 1989–90 season. Prior to 1984 all commercial varieties of cotton available in Australia were susceptible to bacterial blight and the disease was common. The adoption of the resistant varieties contributed to a dramatic decline in the incidence of bacterial blight and the removal of bacterial blight as a significant pathogen to Australian cotton crops by 1992.

Survey results showed the incidence of black root rot increased on farms with a long history of growing cotton during the 1990s. Fusarium wilt of cotton was first reported in New South Wales (NSW) in 1994. The disease is now widespread, being confirmed on 86 NSW farms in six of the eight cotton production areas in NSW. These four significant plant disease ‘problems’ have challenged the cotton industry in NSW.

Data provided by the surveys have indicated the relative importance of each of the diseases present and the impact of cultural practices and the adoption of new varieties on disease distribution, incidence and severity. The results have therefore been used to support and justify requests for research funding and have contributed to the development of Integrated Disease Management strategies.

The NSW Department of Primary Industries continues to monitor the distribution of disease and the incidence and severity present in commercial cotton crops in all production areas of NSW. The aim of this paper is to highlight four significant cotton diseases in Australia and show relationships between cultural practices and declining and increasing incidence of disease.

Glyphosate resistance is a rapidly developing threat to profitability in Australian cotton farming. Resistance causes an immediate reduction in the effectiveness of in-crop weed control in glyphosate-resistant transgenic cotton and summer fallows. Although strategies for delaying glyphosate resistance and those for managing resistant populations are qualitatively similar, the longer resistance can be delayed, the longer cotton growers will have choice over which tactics to apply and when to apply them. Effective strategies to avoid, delay, and manage resistance are thus of substantial value. We used a model of glyphosate resistance dynamics to perform simulations of resistance evolution in Sonchus oleraceus (common sowthistle) and Echinochloa colona (awnless barnyard grass) under a range of resistance prevention, delaying, and management strategies.

From these simulations, we identified several elements that could contribute to effective glyphosate resistance prevention and management strategies. (i) Controlling glyphosate survivors is the most robust approach to delaying or preventing resistance. High-efficacy, high-frequency survivor control almost doubled the useful lifespan of glyphosate from 13 to 25 years even with glyphosate alone used in summer fallows. (ii) Two non-glyphosate tactics in-crop plus two in-summer fallows is the minimum intervention required for long-term delays in resistance evolution. (iii) Pre-emergence herbicides are important, but should be backed up with non-glyphosate knockdowns and strategic tillage; replacing a late-season, pre-emergence herbicide with inter-row tillage was predicted to delay glyphosate resistance by 4 years in awnless barnyard grass. (iv) Weed species’ ecological characteristics, particularly seed bank dynamics, have an impact on the effectiveness of resistance strategies; S. oleraceus, because of its propensity to emerge year-round, was less exposed to selection with glyphosate than E. colona, resulting in an extra 5 years of glyphosate usefulness (18 v. 13 years) even in the most rapid cases of resistance evolution.

Delaying tactics are thus available that can provide some or many years of continued glyphosate efficacy. If glyphosate-resistant cotton cropping is to remain profitable in Australian farming systems in the long-term, however, growers must adapt to the probability that they will have to deal with summer weeds that are no longer susceptible to glyphosate. Robust resistance management systems will need to include a diversity of weed control options, used appropriately.

Weed management practices in cotton systems that were based on frequent cultivation, residual herbicides, and some post-emergent herbicides have changed. The ability to use glyphosate as a knockdown before planting, in shielded sprayers, and now over-the-top in glyphosate-tolerant cotton has seen a significant reduction in the use of residual herbicides and cultivation. Glyphosate is now the dominant herbicide in both crop and fallow. This reliance increases the risk of shifts to glyphosate-tolerant species and the evolution of glyphosate-resistant weeds.

Four surveys were undertaken in the 2008–09 and 2010–11 seasons. Surveys were conducted at the start of the summer cropping season (November–December) and at the end of the same season (March–April). Fifty fields previously surveyed in irrigated and non-irrigated cotton systems were re-surveyed.

A major species shift towards Conyza bonariensis was observed. There was also a minor increase in the prevalence of Sonchus oleraceus. Several species were still present at the end of the season, indicating either poor control and/or late-season germinations. These included C. bonariensis, S. oleraceus, Hibiscus verdcourtii and Hibiscus tridactylites, Echinochloa colona, Convolvulus sp., Ipomea lonchophylla, Chamaesyce drummondii, Cullen sp., Amaranthus macrocarpus, and Chloris virgata. These species, with the exception of E. colona, H. verdcourtii, and H. tridactylites, have tolerance to glyphosate and therefore are likely candidates to either remain or increase in dominance in a glyphosate-based system.

Long-term studies of soil organic carbon dynamics in two- and three-crop rotations in irrigated cotton (Gossypium hirsutum L.) based cropping systems under varying stubble management practices in Australian Vertosols are relatively few. Our objective was to quantify soil organic carbon dynamics during a 9-year period in four irrigated, cotton-based cropping systems sown on permanent beds in a Vertosol with restricted subsoil drainage near Narrabri in north-western New South Wales, Australia. The experimental treatments were: cotton–cotton (CC); cotton–vetch (Vicia villosa Roth. in 2002–06, Vicia benghalensis L. in 2007–11) (CV); cotton–wheat (Triticum aestivum L.), where wheat stubble was incorporated (CW); and cotton–wheat–vetch, where wheat stubble was retained as in-situ mulch (CWV). Vetch was terminated during or just before flowering by a combination of mowing and contact herbicides, and the residues were retained as in situ mulch. Estimates of carbon sequestered by above- and below-ground biomass inputs were in the order CWV >> CW = CV > CC. Carbon concentrations in the 0–1.2 m depth and carbon storage in the 0–0.3 and 0–1.2 m depths were similar among all cropping systems. Net carbon sequestration rates did not differ among cropping systems and did not change significantly with time in the 0–0.3 m depth, but net losses occurred in the 0–1.2 m depth. The discrepancy between measured and estimated values of sequestered carbon suggests that either the value of 5% used to estimate carbon sequestration from biomass inputs was an overestimate for this site, or post-sequestration losses may have been high. The latter has not been investigated in Australian Vertosols. Future research efforts should identify the cause and quantify the magnitude of these losses of organic carbon from soil.

Soil sodicity is widespread in the cracking clays used for irrigated cotton (Gossypium hirsutum L.) production in Australia and worldwide and sometimes produces nutrient imbalances and poor plant growth. It is not known whether these problems are due primarily to soil physical or to soil chemical constraints. We investigated this question by growing cotton to maturity in a glasshouse in large samples of a Grey Vertosol in which the exchangeable sodium percentage (ESP) was adjusted to 2, 13, 19, or 24. A soil-stabilising agent, anionic polyacrylamide (PAM), was added to half the pots and stabilised soil aggregation at all ESPs. Comparison of the effect of ESP on cotton in the pots with and without PAM showed that, up to ESP of 19, the soil physical effects of sodicity were mainly responsible for poor cotton performance and its ability to accumulate potassium. At ESP >19, PAM amendment did not significantly improve lint yield, indicating that soil chemical constraints, high plant sodium concentrations (>0.2%), and marginal plant manganese concentrations limited plant performance. Further research into commercial methods of amelioration of poor physical condition is warranted rather than application of more fertiliser.

Sodicity in Vertosols used for agricultural production can adversely affect the growth and nutrition of cotton (Gossypium hirsutum L.) plants. Cotton produced in sodic soils has reduced dry matter and lint yield and can develop toxic plant tissue concentrations of sodium (Na) but limited tissue concentrations of phosphorus (P,) potassium (K), and micronutrients. Crops produced on sodic soils frequently suffer from aeration stress after an irrigation or rainfall event, and it was hypothesised that the adverse physical and/or chemical conditions of sodic soils may exacerbate the effects of waterlogging. We measured the impacts of sodicity on the growth, nutrition, and root recovery time of cotton during and after waterlogging in two experiments. In the first, cotton plants were subjected to a 7-day period of inundation in Grey Vertosols with a range of exchangeable sodium percentage (ESP) values from 2 to 25%; ³²P was placed in the pots and its accumulation in the plant was used to indicate root activity and recovery after the waterlogging event. In a second experiment, agar was dissolved in nutrient solutions with a range of Na concentrations (9, 30, and 52 mm) matching soil solution Na concentrations in sodic soils, in order to simulate a waterlogging event. Following the waterlogging event, the solutions were labelled with ³²P, in order to determine the effect of sodic soil solution chemistry on the rate of recovery of cotton root function after the event. Plant nutrient analysis was used to determine the effects of sodicity and waterlogging on cotton nutrition. In both experiments, waterlogging reduced root activity and reduced the uptake and transport of labelled P by the cotton plants, decreased plant P and K concentrations, and increased the plant Na concentrations. Sodicity exacerbated the effects of waterlogging on root function and cotton nutrition in the soil experiment but not in the nutrient solution experiment, suggesting that any contribution of waterlogging to the patterns of nutrient accumulation in cotton crops produced in sodic fields occurs due to soil physical factors rather than soil solution chemistry.

Recent studies report low and variable phosphorus (P) fertiliser use efficiency (PUE) for cotton in the northern grains region (NGR) of eastern Australia. This may be due to cotton accessing P pools that are not currently tested for in the subsoil (10–30 cm) or variation in response to P source and placement strategy. Two glasshouse studies were used to investigate this, incorporating two soil P tests to assess readily and slowly available P pools (Colwell, and a dilute acid colloquially referred to as the BSES extractant), and five different P fertiliser placement strategies in the subsoil. Eighteen Vertosols were collected across southern to central Queensland in the NGR, and then used to grow faba bean (Vicia faba L.) and cotton (Gossypium hirsutum L.) sequentially in the same 28-L pot. Readily available P pools assessed by Colwell-P were of major importance for faba bean and cotton dry matter, as well as for tissue P concentrations. Cotton was less responsive to extractable subsoil P concentrations than faba bean, suggesting either greater internal PUE or improved ability to accumulate P under conditions of limited availability. We recommend that subsoil P fertilisation should occur before sowing faba bean to maximise PUE in a cotton–faba bean rotation. Faba bean and cotton both recovered more P when the subsoil was fertilised, but no individual P fertiliser placement strategy was superior. Phosphorus extracted using the BSES method was not correlated with faba bean or cotton dry matter or tissue P concentration over the single crop cycle. We also recommend that Colwell-P be measured in the topsoil and subsoil to understand the quantity of plant-available P in Vertosols of the NGR, and that further research is needed to describe the resupply of the readily available P pool from slowly available P pools during a single crop cycle.

This study was undertaken to identify factors in Australian cotton farming systems that influence yield and fibre quality of cotton and how these have changed with time after the wide adoption of Bollgard II^® cultivars (containing the proteins Cry1Ac and Cry2Ab, providing easier control of Helicoverpa spp.) in the 2003–04 season. Data from Australian commercial cotton variety trials conducted from 2004 to 2011 were used to link management inputs, yield, and fibre quality.

Restricted (residual) maximum likelihood (REML) and regression analyses were used to determine which factors had a significant effect on yield and fibre quality. Results showed that lint yield was significantly influenced by cultivar and growing region, and the interaction between region and the amount of applied nitrogen and phosphorus (kg ha^–1), plant stand (plants ha^–1), in-crop rainfall (mm) and the number of irrigations, season length (days), and days to defoliation. Generally, the same factors also influenced fibre quality. Regression analysis captured 41, 71, 50, 30, and 36% of the variability in lint yield, fibre length, micronaire, fibre strength, and trash, respectively, for irrigated systems. For dryland systems the variability captured was 97, 87, 77 80, and 78%, respectively.

Changes in cotton farming systems from 2004 to 2011 have occurred with applied nitrogen fertiliser increasing under irrigation and decreasing under dryland systems. However, phosphorus fertiliser use has remained steady under irrigated and decreased under dryland systems, and the number of insect sprayings has decreased under both systems. Under irrigated systems, lint yield, fibre length, and trash levels increased while micronaire and fibre strength decreased. Under dryland systems, lint yield decreased while micronaire, fibre length, strength, and trash levels increased. All fibre quality parameters satisfied criteria that would not incur a penalty.

The results considering which factors are the most important and which are of lesser importance provide some insight to changes in management in both irrigated and dryland systems and the effect on lint yield and fibre quality and provide some basis for future investment in research and development and extension to the Australian cotton industry.

Partial mitigation of global warming caused by accelerated emissions of greenhouse gases such as carbon dioxide may be possible by storing atmospheric carbon in soils. Carbon storage is influenced by processes and properties that affect soil aggregation, such as clay and silt concentrations and mineralogy, intensity and frequency of wet/dry cycles, and microbial activity. Microbial activity, in turn, is influenced by factors such as temperature, nutrient and water availability, and residue quality. The objective of this study was to assess the influence of average annual maximum temperature on soil carbon storage in Vertosols under cotton-based farming systems. This paper reports a re-evaluation of results obtained from a series of experiments on cotton-farming systems conducted in eastern Australia between 1993 and 2010. The experimental sites were in the Macquarie and Namoi Valleys of New South Wales, and the Darling Downs and Central Highlands of Queensland.

Average soil organic carbon storage in the 0–0.6 m depth was highest in a Black Vertosol in Central Queensland and lowest in a Grey Vertosol that was irrigated with treated sewage effluent at Narrabri. At other sites, average values were generally comparable and ranged from 65 to 85 t C/ha. Climatic parameters such as ambient maximum temperature, T_max, and rainfall at rainfed sites (but not irrigated sites) were also related to soil organic carbon storage. At most sites, variations in carbon storage with average ambient maximum temperature were described by Gaussian models or bell-shaped curves, which are characteristic of microbial decomposition. Carbon storage occurred at peak rates only for a very limited temperature range at any one site, with these temperatures increasing with decreasing distance from the equator. The exception was a site near Narrabri that was irrigated with treated sewage effluent, where the relationship between soil organic carbon and T_max was linear. The decrease or absence of change in soil carbon storage with time reported in many Australian studies of annual cropping systems may be due to carbon storage occurring within a limited temperature range, whereas intra-seasonal average maximum temperatures can range widely. Further research needs to be conducted under field conditions to confirm these observations.