Generation and Characterisation of a Reference Transcriptome for Phalaris (Phalaris aquatica L.)

Perennial grasses have production and environmental benefits in areas of southern Australia typified by the mixed farming zone of southern New South Wales (NSW). The perennial grass phalaris (Phalaris aquatica L.) is widely used in southern Australia; however, it would find more use in the mixed farming zone if its persistence in marginal rainfall areas (450–500 mm average annual rainfall) were improved. We evaluated a range of germplasm (n = 29) including wild accessions, lines bred from these, and existing cultivars for persistence and production at three sites in a summer-dry area of southern NSW with 430–460-mm average annual rainfall. Two sites were used over 4 years and the third site over 5 years. Summer dormancy, maturity time and seedling growth were also assessed. Analysis of genotype × environment interaction employing factor analytic models and accounting for spatial and temporal correlations indicated that changes in persistence occurred mainly over time rather than between sites. Ranking changes occurred in the dry establishment phase of the experiment and during a severe final summer drought, with few changes occurring in the intervening high-rainfall years. Lines that survived the establishment phase best had vigorous seedlings and earlier maturity, whereas those surviving the final summer best were earlier maturing and higher in summer dormancy with high winter-growth activity. Some later maturing lines within the higher summer dormancy group were less persistent. Some accessions from North Africa were the most persistent; also, populations bred from these and other more persistent accessions generally persisted and produced better than cultivars used presently. However, present cultivars were capable of high yield in the higher rainfall years. We suggest that persistence of higher summer dormancy cultivars over very dry years could be improved by selecting for earlier maturity time.

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De novo assembly of the Brown trout (Salmo trutta m. fario) brain and muscle transcriptome: transcript annotation, tissue differential expression profile and SNP discovery

BMC Research Notes ◽

10.1186/s13104-020-05351-4 ◽

2020 ◽

Vol 13 (1) ◽

Author(s):

J. Fibla ◽

N. Oromi ◽

M. Pascual-Pons ◽

J. L. Royo ◽

A. Palau ◽

...

Keyword(s):

Differential Expression ◽

Brown Trout ◽

Salmo Trutta ◽

De Novo ◽

Transcriptome Assembly ◽

Differential Expression Analysis ◽

Cdna Libraries ◽

Significant Differential Expression ◽

Reference Transcriptome ◽

Salmonid Species

Abstract Objectives The Brown trout is a salmonid species with a high commercial value in Europe. Life history and spawning behaviour include resident (Salmo trutta m. fario) and migratory (Salmo trutta m. trutta) ecotypes. The main objective is to apply RNA-seq technology in order to obtain a reference transcriptome of two key tissues, brain and muscle, of the riverine trout Salmo trutta m. fario. Having a reference transcriptome of the resident form will complement genomic resources of salmonid species. Data description We generate two cDNA libraries from pooled RNA samples, isolated from muscle and brain tissues of adult individuals of Salmo trutta m. fario, which were sequenced by Illumina technology. Raw reads were subjected to de-novo transcriptome assembly using Trinity, and coding regions were predicted by TransDecoder. A final set of 35,049 non-redundant ORF unigenes were annotated. Tissue differential expression analysis was evaluated by Cuffdiff. A False Discovery Rate (FDR) ≤ 0.01 was considered for significant differential expression, allowing to identify key differentially expressed unigenes. Finally, we have identified SNP variants that will be useful tools for population genomic studies.

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Alkaloid Levels in Phalaris aquatica L. as Affected by Environment 1

Agronomy Journal ◽

10.2134/agronj1978.00021962007000060021x ◽

1978 ◽

Vol 70 (6) ◽

pp. 977-981 ◽

Cited By ~ 17

Author(s):

Donald M. Ball ◽

Carl S. Hoveland

Keyword(s):

Phalaris Aquatica

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Phosphorus seed coatings for pasture species. II. Comparison of effectiveness of phosphorus applied as seed coatings, drilled or broadcast, in promoting early growth of phalaris (Phalaris aquatica L.) and lucerne (Medicago sativa L.)

Australian Journal of Agricultural Research ◽

10.1071/ar9880447 ◽

1988 ◽

Vol 39 (3) ◽

pp. 447 ◽

Cited By ~ 6

Author(s):

JM Scott ◽

GJ Blair

Keyword(s):

Medicago Sativa ◽

Plant Height ◽

Early Growth ◽

The Other ◽

Fertilizer Treatment ◽

Seed Coating ◽

Phalaris Aquatica ◽

Medicago Sativa L ◽

Application Methods ◽

P Sources

The relative efficiency of phosphorus (P) seed coatings and drilled and broadcast applications of P was investigated in a glasshouse experiment conducted with phalaris (Phalaris aquatica L.) and lucerne (Medicago sativa L.) in P-deficient soil. Two P sources (monocalcium phosphate [MCP] and dicalcium phosphate [DCP]) were used at three rates in seed coatings (0, 5 and 10 kg P ha-1) or at six rates each of drilled or broadcast applications (0, 2.5, 5, 10, 20 and 40 kg P ha-1). MCP coatings severely reduced lucerne emergence and hence yield, but had little effect on phalaris emergence. No other fertilizer treatment affected emergence. The height of phalaris plants at 27 days after sowing (d.a.s.) was increased as much by seed coatings containing MCP at 5 kg P ha-1 as by drill or broadcast applications of MCP at 20 kg P ha-1. Plant height of the MCP seed coating treatments was also less variable than the other application methods, suggesting that the coatings provided more uniform access to P. Seed coatings containing DCP at 10 kg P ha-1 increased phalaris plant height more than did drilled or broadcast applications at 40 kg P ha-1, but there was no effect of any DCP treatment on lucerne growth at 27 d.a.s. The relatively large differences observed in plant height between different application methods at 27 d.a.s. diminished over time until, at 57 d.a.s., only small differences were evident. The dry matter yield and P content of both species were increased by increasing rates of MCP, but DCP had little effect at any rate. The reduced differences between the seed coating treatments and the other application methods at harvest may have been due to the limited soil volume of the pots used; further work is necessary in larger soil volumes to determine the significance of the early growth advantage conferred on phalaris by the phosphorus seed coatings, and to find ways of protecting lucerne from soluble P sources during germination.

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Nitrogen fixation by subterranean clover (Trifolium subterraneum L.) growing in pure culture and in mixtures with varying densities of lucerne (Medicago sativa L.) or phalaris (Phalaris aquatica L.)

Australian Journal of Agricultural Research ◽

10.1071/ar98186 ◽

1999 ◽

Vol 50 (6) ◽

pp. 1047 ◽

Cited By ~ 33

Author(s):

B. S. Dear ◽

M. B. Peoples ◽

P. S. Cocks ◽

A. D. Swan ◽

A. B. Smith

Keyword(s):

Medicago Sativa ◽

N2 Fixation ◽

Pure Culture ◽

Subterranean Clover ◽

Trifolium Subterraneum ◽

Shoot Biomass ◽

N Fixation ◽

Mineral N ◽

Phalaris Aquatica ◽

Medicago Sativa L

The proportions of biologically fixed (Pfix) plant nitrogen (N) and the total amounts of N2 fixed by subterranean clover (Trifolium subterraneum L.) growing in pure culture and in mixtures with different densities (5, 10, 20, or 40plants/m2) of newly sown phalaris (Phalaris aquatica L.) or lucerne (Medicago sativa L.) were followed over 3 years in a field study using the 15N natural abundance technique. The amount of fixed N in subterranean clover was linearly related to shoot biomass. Over the 3-year period, subterranean clover fixed 23–34 kg N/t shoot biomass compared with 17–29 kg N/t shoot biomass in lucerne. Based on above-ground biomass, pure subterranean clover fixed 314 kg N/ha over the 3 years compared with 420–510 kg N/ha by lucerne–clover mixtures and 143–177 kg N/ha by phalaris–clover mixtures. The superior N2 fixation by the lucerneŒsubterranean clover mixtures was due to the N fixed by the lucerne and the presence of a higher subterranean clover biomass relative to that occurring in the adjacent phalaris plots. In the first year, 92% of subterranean clover shoot N was derived from fixation compared with only 59% of lucerne. The reliance of clover upon fixed N2 remained high (73–95%) throughout the 3 years in all swards, except in pure subterranean clover and lucerne in August 1996 (56 and 64%, respectively). Subterranean clover usually fixed a higher proportion of its N when grown in mixtures with phalaris than with lucerne. The calculated Pfix values for lucerne (47–61% in 1995 and 39–52% in 1996) were consistently lower than in subterranean clover and tended to increase with lucerne density. Although lucerne derived a lower proportion of its N from fixation than subterranean clover, its tissue N concentration was consistently higher, indicating it was effective at scavenging soil mineral N. It was concluded that including lucerne in wheat-belt pastures will increase inputs of fixed N. Although lucerne decreased subterranean clover biomass, it maintained or raised Pfix values compared with pure subterranean clover swards. The presence of phalaris maintained a high dependence on N2 fixation by subterranean clover, but overall these swards fixed less N due to the lower clover herbage yields. Perennial and annual legumes appear compatible if sown in a mix and can contribute more N2 to the system than where the annual is sown alone or with a perennial grass. These findings suggest that increases in the amount of N2 fixed can be achieved through different legume combinations without interfering greatly with the N fixation process. Different combinations may also result in more efficient use of fixed N2 through reduced leaching. Further work looking at combinations of annuals possibly with different maturity times, different annual and perennial legume combinations, and pure combinations of perennial (e.g. lucerne) could be investigated with the aim of maximising N2 fixation and use. Grazing management to encourage clover production in mixtures with phalaris will be necessary before the potential of subterranean clover to contribute fixed N2 in these swards is fully realised.

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Effects of cutting and grazing on newly sown plants of Phalaris aquatica cv. Sirosa at Tamworth, New South Wales

Australian Journal of Experimental Agriculture ◽

10.1071/ea06268 ◽

2007 ◽

Vol 47 (11) ◽

pp. 1351 ◽

Cited By ~ 1

Author(s):

G. M. Lodge

Keyword(s):

Stem Elongation ◽

Tiller Number ◽

Water Soluble ◽

Soluble Carbohydrates ◽

Phalaris Aquatica ◽

Basal Cover ◽

South Wales ◽

Water Soluble Carbohydrates ◽

Plant Frequency ◽

Fertiliser Application

A field study was conducted (1994–97) to investigate defoliation time and frequency effects on a newly sown stand of phalaris (Phalaris aquatica cv. Sirosa). Defoliation treatments were applied from spring 1994 to autumn 1995 and effects on plant frequency and basal cover monitored until June 1997. The experimental design was a randomised split-plot in three replicates, with 45 main plots and 90 subplots. Main plots included three types of defoliation (two cutting heights or grazing with Merino sheep) applied at four different times (early stem elongation, anthesis, end of summer and end of autumn) and an undefoliated control. The main plots were divided into two subplots for frequency of defoliation (once only or cut every 8 weeks). In September 1995, none of the treatments had a significant effect on plant frequency, basal cover, green tiller weight and weight of individual tillers. However, there were significant (P < 0.05) effects of defoliation type on green tiller number, defoliation time on basal bud weight and water soluble carbohydrates and defoliation type and frequency on basal bud water soluble carbohydrates. In February and April 1996, there were significant effects of defoliation time on green tiller number and weight, basal bud weight and water soluble carbohydrates. In 1996, Sirosa phalaris plant frequency and basal cover values were generally higher (P < 0.05) in the undefoliated control compared with those defoliated at early stem elongation. However, despite fertiliser application and moderate grazing, Sirosa phalaris plant frequency had declined to a mean of 23.6% by February 1997 and to <10% by June 1997.

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A comparison of the effects of feed supplements cobalt and selenium, and perennial and annual pastures on the production of medium Peppin Merino weaner sheep in south-western Australia

Australian Journal of Experimental Agriculture ◽

10.1071/ea9890361 ◽

1989 ◽

Vol 29 (3) ◽

pp. 361

Author(s):

HL Davies ◽

PP Mann ◽

B Goddard

Keyword(s):

Western Australia ◽

Subterranean Clover ◽

Trifolium Subterraneum ◽

Grass Species ◽

Feed Supplement ◽

Protein Meal ◽

Wool Production ◽

Phalaris Aquatica ◽

High Protein Meal ◽

Cereal Group

Two experiments on weaner production are reported. In experiment 1, the liveweight and wool production were measured in medium Peppin Merino sheep that grazed at 10.5 weanerstha 8 plots of a mixed Phalaris aquatica-subterranean clover pasture or 8 plots of annual pasture (Trifolium subterraneum cv. Woogenellup and volunteer annual grass species). This was repeated over 2 years using autumn-born sheep; 4 groups on each pasture type were offered no supplement, 2 groups a cereal supplement (340 goats), and 2 groups of supplement isoenergetic with the cereal group but having a high protein meal replace some of the cereal (250 g oats and 60 g protein). The feed supplement was offered over the summer (January-April). The sheep on 2 of the unsupplemented plots and 1 of the 2 plots receiving either a cereal or cereal + protein supplement were offered access to a composite mineral block formulated to meet the mineral requirements of sheep with the exception of cobalt and selenium. There were 16 sheep on each plot within each group of 16 weaners, 4 were given an intraruminal cobalt 'bullet', 4 were given 5 mg of selenium orally, 4 given cobalt plus selenium and 4 were untreated controls. Experiment 2 was in year 3 with spring-born weaners on the same plots. The mineral block treatment was discarded on the plots receiving supplement and the effect of supplementary feeding at the beginning of March was compared with feeding in early January; barley was also compared with oats and protein. The stocking rate was raised to 13.5 sheep/ha. There were no statistically significant differences in sheep liveweight due to pasture type in either of the years of experiment 1 or experiment 2. Supplementation with cereals or protein-fortified cereals resulted in a significantly ( P < 0.05) increased liveweight at the end of March (5.6 kg in year 1,2.4 kg in year 2 of experiment 1, and 2.5 kg in experiment 2), and wool production (0.49 kg clean wool in year 1 and 0.3 1 kg in year 2 in experiment 1, and 0.49 in experiment 2). There was a significant liveweight response on the perennial plots to selenium + cobalt in year 1 of experiment 1. All cobalt-treated sheep were heavier ( P < 0.001) in year 2. Neither selenium nor cobalt significantly affected liveweight in experiment 2. The proportion of Phalaris aquatica on the perennial pasture diminished from 18% to less than 9% by the end of year 2 in experiment 1. These results suggest that, if perennial pastures cannot be maintained, then their establishment in the south-west of Western Australia would not result in greater animal production than on annual pasture. Decisions on using supplements would be dependent upon feed and wool prices.

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Establishing surface-sown pastures in a Poa labillardieri-Themeda australis association

Australian Journal of Experimental Agriculture ◽

10.1071/ea9860331 ◽

1986 ◽

Vol 26 (3) ◽

pp. 331 ◽

Cited By ~ 2

Author(s):

MH Campbell ◽

MJ Keys ◽

RD Murison ◽

JJ Dellow

Keyword(s):

Festuca Arundinacea ◽

New South ◽

New South Wales ◽

Ground Cover ◽

Cost Effective ◽

Phalaris Aquatica ◽

South Wales ◽

Before And After

The effects of time and rate of application of glyphosate, 2,2-DPA and tetrapion on Poa labillardieri and Themeda australis were measured in seven experiments carried out 55 km south of Braidwood, on the southern tablelands of New South Wales between 1980 and 1982. In an eighth experiment (1981) and in a 35-ha demonstration (1983), at the same site, the effects of applying herbicides (before and after the autumn break) and surface-sowing Phalaris aquatica, Festuca arundinacea and Trifiolium repens with fertiliser on the control of P. labillardieri were ascertained. All three herbicides proved effective in reducing the ground cover of P. labillardieri from applications at any time of the year. For T. australis, tetrapion proved effective when applied at any time of the year, while glyphosate and 2,2-DPA were effective in all seasons except winter. Glyphosate at rates between 0.72 and 1.44 kg/ha a.i. was more cost effective than 2,2-DPA (11.1 kg/ha a.i.) and tetrapion (3.75 kg/ha a.i.). Best establishment and development of sown grasses and legumes was attained by applying herbicides after the autumn break but before heavy frosts, and then surface-sowing 1-3 months later. Control of P. labillardieri was best where P. aquatica and F. arundinacea established most densely.

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