Complete chloroplast genome of Serrated Tussock, Nassella trichotoma (Poaceae: Stipeae).

Nassella trichotoma is one of the most serious weed species in Australia. It is often confused with other Nassella and stipoid species, especially at the young seedling stage, adding another layer of complexity in effective weed management. We report here the complete chloroplast genome of N. trichotoma (137,568 bp, GenBank accession number KX792500.2) sequenced using Next Generation Sequencing technology (Illumina). The N. trichotoma was grouped closely with other Nassella species and separated from other Stipeae species in the phylogenetic tree constructed based on the complete chloroplast genome sequences. The sequence information could be used for further identification of novel DNA barcodes for correct weed identification and subsequently improve management of this invasive grass.

Chloroplast genome of silverleaf nightshade (Solanum elaeagnifolium Cav.), a Weed of National Significance in Australia.

Solanum elaeagnifolium Cav. is a widely distributed weed and recognized as a Weed of National Significance in Australia. This study sequenced the chloroplast (cp) genome of S. elaeagnifolium, which is 155,049 bp in length, including a large single-copy region at 85, 426 bp, a small single-copy region at 18,419 bp and two inverted repeats at 25,602 bp. A total of 130 genes were annotated. The phylogeny among the S. elaeagnifolium and 42 Solanum chloroplast genomes suggested S. elaeagnifolium is closely related to Solanum species from the section of Melongena.

Species Identification of Conyza bonariensis Assisted by Chloroplast Genome Sequencing.

Flaxleaf fleabane (Conyza bonariensis [L.] Cronquist) is one of the most difficult weeds to control worldwide. There are more than 150 Conyza species in the world and eight species in Australia. Correct identification of these species can be problematic due to their morphological similarities especially at seedling stage. Developing a robust genetics - based species identification method to distinguish C. bonariensis from other closely related species is important for early control of weeds. We thus examined the chloroplast (cp) genome of C. bonariensis, aiming to identify novel DNA barcodes from the genome sequences, and use the entire cp genome as a super-barcode for molecular identification. The C. bonariensis chloroplast genome is 152,076 bp in size, encodes 133 genes including 88 protein-coding genes, 37 tRNA genes and 8 ribosomal RNA genes. A total of 151 intergenic regions and 19 simple sequence repeats were identified in the cp genome of C. bonariensis, which provides a useful genetic resource to develop robust markers for the genetic diversity studies of Conyza species. The sequence information was used to design a robust DNA barcode rps16 and trnQ-UUG which successfully separated three predominant Conyza species (C. bonariensis, C. canadensis, and C. sumatrensis). Phylogenetic analyses based on the cp genomes of C. bonariensis, C. canadensis and 18 other Asteraceae species revealed the potential of using entire cp genome as a plant super-barcode to distinguish closely-related weed species.

Complete Chloroplast Genome Sequence of Cane Needle Grass, Nassella hyalina (Poaceae: Stipeae).

Nassella hyalina (cane needle grass) is on the Alert List for Environmental Weeds in Australia. We present here the first complete chloroplast sequence of N. hyalina reconstructed from Illumina whole-genome sequencing. The complete chloroplast sequence is 137,606 bp in size and has a gene content and structure similar to those of other published chloroplast genomes of Stipeae.

Complete chloroplast genome of Chilean needle grass, Nassella neesiana (Poaceae: Stipeae).

Nassella neesiana (Chilean needle grass) is a serious weed in Australia, and has been included in the list of Weeds of National Significance (WoNS). We present here, the complete chloroplast sequence of N. neesiana reconstructed from Illumina whole genome sequencing. The complete chloroplast sequence is 137,700 bp in size, and has similar gene content and structure as other published chloroplast genomes of Stipeae. The N. neesiana chloroplast genome is deposited at GenBank under accession number MF480752.

Evaluation of six candidate DNA barcode loci for identification of five important invasive grasses in eastern Australia.

Invasive grass weeds reduce farm productivity, threaten biodiversity, and increase weed control costs. Identification of invasive grasses from native grasses has generally relied on the morphological examination of grass floral material. DNA barcoding may provide an alternative means to identify co-occurring native and invasive grasses, particularly during early growth stages when floral characters are unavailable for analysis. However, there are no universal loci available for grass barcoding. We herein evaluated the utility of six candidate loci (atpF intron, matK, ndhK-ndhC, psbE-petL, ETS and ITS) for barcode identification of several economically important invasive grass species frequently found among native grasses in eastern Australia. We evaluated these loci in 66 specimens representing five invasive grass species (Chloris gayana, Eragrostis curvula, Hyparrhenia hirta, Nassella neesiana, Nassella trichotoma) and seven native grass species. Our results indicated that, while no single locus can be universally used as a DNA barcode for distinguishing the grass species examined in this study, two plastid loci (atpF and matK) showed good distinguishing power to separate most of the taxa examined, and could be used as a dual locus to distinguish several of the invasive from the native species. Low PCR success rates were evidenced among two nuclear loci (ETS and ITS), and few species were amplified at these loci, however ETS was able to genetically distinguish the two important invasive Nassella species. Multiple loci analyses also suggested that ETS played a crucial role in allowing identification of the two Nassella species in the multiple loci combinations.

Draft genome sequence of Bacillus thuringiensis strain DAR 81934, which exhibits molluscicidal activity.

Bacillus thuringiensis has been widely used as a biopesticide for a long time. Its molluscicidal activity, however, is rarely realized. Here, we report the genome sequence of B. thuringiensis strain DAR 81934, a strain with molluscicidal activity against the pest snail Cernuella virgata.