The Genus Sulettaria A.D.Poulsen & Mathisen (Zingiberaceae) in Sarawak, Malaysia

Zingiberaceae is one of the most common herbaceous plant families in the tropical rainforests of Borneo, Malaysia. Many studies have been conducted on this family, yet the documentation of this family is still far from complete. Zingiberaceae also included many species that were reclassified, with many new genera introduced to accommodate the species based on the molecular work. Sulettaria A.D.Poulsen and Mathisen is one of the examples of a new genus introduced to accommodate such ginger species from Southeast Asia formerly from the genera Elettaria and Amomum. The majority of the species that are assigned to this new genus are found in Sarawak. This study aims to document information on Sulettaria with special reference to ecological and taxonomic aspects from Sarawak. A checklist of species found in Sarawak is included

Myristica lowiana Phytochemicals as Inhibitor of Plasmid Conjugation in Escherichia coli

Hexane extract and methanol fraction from the stem bark of Myristica lowiana specifically and significantly inhibited the conjugal transfer of the IncW plasmid R7K, a plasmid which harbors ampicillin-, streptomycin-, and spectinomycin-resistant genes. The transfer of this plasmid via the conjugative pilli of Escherichia coli was reduced by 76.5 ± 2.0% and 79.0 ± 1.2% by hexane extract and methanol fraction of M. lowiana, respectively. The hexane extract exhibited significant anti-conjugant activity at a non-cytotoxic concentration of 100 mg/L as assessed against adult human dermal fibroblast cells. The hexane extract and methanol fraction were screened using phytochemical tests, NMR spectroscopy, IR spectroscopy, and high-resolution electrospray ionization mass spectrometry (HRESIMS) and were found to contain terpenoids, sterols, and fatty acids

Amomum jackliamii, A new zingiberaceae species from western Sarawak, Borneo

Amomum jackliamii, a new Zingiberaceae species is described herein. The new species is close to Amomum stenosiphon but this species has white prickly hairs towards the leaf tip at both edges of the leaf margin at the apex, adaxially surface reddish to dark green when matured. The leaves produce lemony smell and strong smell on the root when crushed white-cream flowers, the lip has a yellow centre bordered by two red lines, about 8.5 cm long, that graduall

The Genus Sulettaria A.D.Poulsen & Mathisen (Zingiberaceae) in Sarawak, Malaysia

Zingiberaceae is one of the most common herbaceous plant families in the tropical rainforests of Borneo, Malaysia. Many studies have been conducted on this family, yet the documentation of this family is still far from complete. Zingiberaceae also included many species that were reclassified, with many new genera introduced to accommodate the species based on the molecular work. Sulettaria A.D.Poulsen and Mathisen is one of the examples of a new genus introduced to accommodate such ginger species from Southeast Asia formerly from the genera Elettaria and Amomum. The majority of the species that are assigned to this new genus are found in Sarawak. This study aims to document information on Sulettaria with special reference to ecological and taxonomic aspects from Sarawak. A checklist of species found in Sarawak is included. Keywords: Borneo, diversity, endemic, Malaysia, taxonomy, wild ginger

THE VEGETATION

Bako National Park was gazetted as a protected area in 1957, making it Sarawak’s oldest Park. With a coverage area of 2742 hectares and located at the tip of the sandstone peninsula of Muara Tebas, the vegetation of Bako is unique in many ways. The word “Bako” originates from the Malay “Bakau”, a mangrove tree species that can be spotted along the Bako river on the way to the Park Headquarters

Analysis of five deep-sequenced trio-genomes of the Peninsular Malaysia Orang Asli and North Borneo populations

BackgroundRecent advances in genomic technologies have facilitated genome-wide investigation of human genetic variations. However, most efforts have focused on the major populations, yet trio genomes of indigenous populations from Southeast Asia have been under-investigated.ResultsWe analyzed the whole-genome deep sequencing data (30x) of five native trios from Peninsular Malaysia and North Borneo, and characterized the genomic variants, including single nucleotide variants (SNVs), small insertions and deletions (indels) and copy number variants (CNVs). We discovered approximately 6.9 million SNVs, 1.2 million indels, and 9000 CNVs in the 15 samples, of which 2.7% SNVs, 2.3% indels and 22% CNVs were novel, implying the insufficient coverage of population diversity in existing databases. We identified a higher proportion of novel variants in the Orang Asli (OA) samples, i.e., the indigenous people from Peninsular Malaysia, than that of the North Bornean (NB) samples, likely due to more complex demographic history and long-time isolation of the OA groups. We used the pedigree information to identify de novo variants and estimated the autosomal mutation rates to be 0.81x10(-8) - 1.33x10(-8), 1.0x10(-9) - 2.9x10(-9), and 0.001 per site per generation for SNVs, indels, and CNVs, respectively. The trio-genomes also allowed for haplotype phasing with high accuracy, which serves as references to the future genomic studies of OA and NB populations. In addition, high-frequency inherited CNVs specific to OA or NB were identified. One example is a 50-kb duplication in DEFA1B detected only in the Negrito trios, implying plausible effects on host defense against the exposure of diverse microbial in tropical rainforest environment of these hunter-gatherers. The CNVs shared between OA and NB groups were much fewer than those specific to each group. Nevertheless, we identified a 142-kb duplication in AMY1A in all the 15 samples, and this gene is associated with the high-starch diet. Moreover, novel insertions shared with archaic hominids were identified in our samples.ConclusionOur study presents a full catalogue of the genome variants of the native Malaysian populations, which is a complement of the genome diversity in Southeast Asians. It implies specific population history of the native inhabitants, and demonstrated the necessity of more genome sequencing efforts on the multi-ethnic native groups of Malaysia and Southeast Asia

A multi-stage genome-wide association study of bladder cancer identifies multiple susceptibility loci.

We conducted a multi-stage, genome-wide association study of bladder cancer with a primary scan of 591,637 SNPs in 3,532 affected individuals (cases) and 5,120 controls of European descent from five studies followed by a replication strategy, which included 8,382 cases and 48,275 controls from 16 studies. In a combined analysis, we identified three new regions associated with bladder cancer on chromosomes 22q13.1, 19q12 and 2q37.1: rs1014971, (P = 8 × 10⁻¹²) maps to a non-genic region of chromosome 22q13.1, rs8102137 (P = 2 × 10⁻¹¹) on 19q12 maps to CCNE1 and rs11892031 (P = 1 × 10⁻⁷) maps to the UGT1A cluster on 2q37.1. We confirmed four previously identified genome-wide associations on chromosomes 3q28, 4p16.3, 8q24.21 and 8q24.3, validated previous candidate associations for the GSTM1 deletion (P = 4 × 10⁻¹¹) and a tag SNP for NAT2 acetylation status (P = 4 × 10⁻¹¹), and found interactions with smoking in both regions. Our findings on common variants associated with bladder cancer risk should provide new insights into the mechanisms of carcinogenesis

A multi-stage genome-wide association study of bladder cancer identifies multiple susceptibility loci.

We conducted a multi-stage, genome-wide association study of bladder cancer with a primary scan of 591,637 SNPs in 3,532 affected individuals (cases) and 5,120 controls of European descent from five studies followed by a replication strategy, which included 8,382 cases and 48,275 controls from 16 studies. In a combined analysis, we identified three new regions associated with bladder cancer on chromosomes 22q13.1, 19q12 and 2q37.1: rs1014971, (P = 8 × 10⁻¹²) maps to a non-genic region of chromosome 22q13.1, rs8102137 (P = 2 × 10⁻¹¹) on 19q12 maps to CCNE1 and rs11892031 (P = 1 × 10⁻⁷) maps to the UGT1A cluster on 2q37.1. We confirmed four previously identified genome-wide associations on chromosomes 3q28, 4p16.3, 8q24.21 and 8q24.3, validated previous candidate associations for the GSTM1 deletion (P = 4 × 10⁻¹¹) and a tag SNP for NAT2 acetylation status (P = 4 × 10⁻¹¹), and found interactions with smoking in both regions. Our findings on common variants associated with bladder cancer risk should provide new insights into the mechanisms of carcinogenesis

Atrasentan and renal events in patients with type 2 diabetes and chronic kidney disease (SONAR): a double-blind, randomised, placebo-controlled trial

Background: Short-term treatment for people with type 2 diabetes using a low dose of the selective endothelin A receptor antagonist atrasentan reduces albuminuria without causing significant sodium retention. We report the long-term effects of treatment with atrasentan on major renal outcomes. Methods: We did this double-blind, randomised, placebo-controlled trial at 689 sites in 41 countries. We enrolled adults aged 18–85 years with type 2 diabetes, estimated glomerular filtration rate (eGFR)25–75 mL/min per 1·73 m 2 of body surface area, and a urine albumin-to-creatinine ratio (UACR)of 300–5000 mg/g who had received maximum labelled or tolerated renin–angiotensin system inhibition for at least 4 weeks. Participants were given atrasentan 0·75 mg orally daily during an enrichment period before random group assignment. Those with a UACR decrease of at least 30% with no substantial fluid retention during the enrichment period (responders)were included in the double-blind treatment period. Responders were randomly assigned to receive either atrasentan 0·75 mg orally daily or placebo. All patients and investigators were masked to treatment assignment. The primary endpoint was a composite of doubling of serum creatinine (sustained for ≥30 days)or end-stage kidney disease (eGFR <15 mL/min per 1·73 m 2 sustained for ≥90 days, chronic dialysis for ≥90 days, kidney transplantation, or death from kidney failure)in the intention-to-treat population of all responders. Safety was assessed in all patients who received at least one dose of their assigned study treatment. The study is registered with ClinicalTrials.gov, number NCT01858532. Findings: Between May 17, 2013, and July 13, 2017, 11 087 patients were screened; 5117 entered the enrichment period, and 4711 completed the enrichment period. Of these, 2648 patients were responders and were randomly assigned to the atrasentan group (n=1325)or placebo group (n=1323). Median follow-up was 2·2 years (IQR 1·4–2·9). 79 (6·0%)of 1325 patients in the atrasentan group and 105 (7·9%)of 1323 in the placebo group had a primary composite renal endpoint event (hazard ratio [HR]0·65 [95% CI 0·49–0·88]; p=0·0047). Fluid retention and anaemia adverse events, which have been previously attributed to endothelin receptor antagonists, were more frequent in the atrasentan group than in the placebo group. Hospital admission for heart failure occurred in 47 (3·5%)of 1325 patients in the atrasentan group and 34 (2·6%)of 1323 patients in the placebo group (HR 1·33 [95% CI 0·85–2·07]; p=0·208). 58 (4·4%)patients in the atrasentan group and 52 (3·9%)in the placebo group died (HR 1·09 [95% CI 0·75–1·59]; p=0·65). Interpretation: Atrasentan reduced the risk of renal events in patients with diabetes and chronic kidney disease who were selected to optimise efficacy and safety. These data support a potential role for selective endothelin receptor antagonists in protecting renal function in patients with type 2 diabetes at high risk of developing end-stage kidney disease. Funding: AbbVie