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• Journal article
  Versi A, Azim A, Ivan FX, Abdel-Aziz M, Bates S, Riley J, Maitland-Van der Zee A, Dahlen S-E, Djukanovic R, Chotirmall S, Howarth P, Zounemat Kermani N, Chung KF, Adcock Iet al., 2024,

  Host-microbial interactions differ with age of asthma onset

  , European Respiratory Journal, Vol: 64, ISSN: 0903-1936
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• Journal article
  Fainberg HP, Moodley Y, Triguero I, Corte TJ, Sand JMB, Leeming DJ, Karsdal MA, Wells AU, Renzoni E, Mackintosh J, Tan DBA, Li R, Porte J, Braybrooke R, Saini G, Johnson SR, Wain L, Molyneaux PL, Maher TM, Stewart ID, Jenkins RGet al., 2024,

  Cluster analysis of blood biomarkers to identify molecular patterns in pulmonary fibrosis: assessment of a multicentre, prospective, observational cohort with independent validation

  , LANCET RESPIRATORY MEDICINE, Vol: 12, Pages: 681-692, ISSN: 2213-2600
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• Journal article
  Versi A, Azim A, Ivan FX, Abdel-Aziz MI, Bates S, Riley J, Uddin M, Zounemat Kermani N, Maitland-Van Der Zee A-H, Dahlen S-E, Djukanovic R, Chotirmall SH, Howarth P, Adcock IM, Chung KF, UBIOPRED study groupet al., 2024,

  A severe asthma phenotype of excessive airway Haemophilus influenzae relative abundance associated with sputum neutrophilia

  , Clinical and Translational Medicine, Vol: 14, ISSN: 2001-1326

  BACKGROUND: Severe asthma (SA) encompasses several clinical phenotypes with a heterogeneous airway microbiome. We determined the phenotypes associated with a low α-diversity microbiome. METHODS: Metagenomic sequencing was performed on sputum samples from SA participants. A threshold of 2 standard deviations below the mean of α-diversity of mild-moderate asthma and healthy control subjects was used to define those with an abnormal abundance threshold as relative dominant species (RDS). FINDINGS: Fifty-one out of 97 SA samples were classified as RDSs with Haemophilus influenzae RDS being most common (n = 16), followed by Actinobacillus unclassified (n = 10), Veillonella unclassified (n = 9), Haemophilus aegyptius (n = 9), Streptococcus pseudopneumoniae (n = 7), Propionibacterium acnes (n = 5), Moraxella catarrhalis (n = 5) and Tropheryma whipplei (n = 5). Haemophilus influenzae RDS had the highest duration of disease, more exacerbations in previous year and greatest number on daily oral corticosteroids. Hierarchical clustering of RDSs revealed a C2 cluster (n = 9) of highest relative abundance of exclusively Haemophilus influenzae RDSs with longer duration of disease and higher sputum neutrophil counts associated with enrichment pathways of MAPK, NF-κB, TNF, mTOR and necroptosis, compared to the only other cluster, C1, which consisted of 7 Haemophilus influenzae RDSs out of 42. Sputum transcriptomics of C2 cluster compared to C1 RDSs revealed higher expression of neutrophil extracellular trap pathway (NETosis), IL6-transignalling signature and neutrophil activation. CONCLUSION: We describe a Haemophilus influenzae cluster of the highest relative abundance associated with neutrophilic inflammation and NETosis indicating a host response to the bacteria. This phenotype of severe asthma may respond to specific antibiotics.

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• Conference paper
  Short C, Semple T, Abkir M, Tibiletti M, Rosenthal M, Padley S, Parker GJM, Davies JCet al., 2024,

  Assessing pulmonary exacerbations (PEx) in people with cystic fibrosis (pwCF) with dynamic functional lung MRI

  , Publisher: EUROPEAN RESPIRATORY SOC JOURNALS LTD, ISSN: 0903-1936
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• Conference paper
  Santofimio VQ, Knox-Brown B, Potts J, Bartlett-Pestell S, Feary J, Amaral AFSet al., 2024,

  Small airways obstruction and mortality in the UK Biobank

  , European-Respiratory-Society Congress (ERS), Publisher: EUROPEAN RESPIRATORY SOC JOURNALS LTD, ISSN: 0903-1936
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• Conference paper
  Feary J, Szram J, Burton M, Chua F, Coker R, Datta A, Hewitt R, Kokosi M, Kouranos V, Reynolds C, Ross C, Smith V, Ward K, Wickremasinghe M, Devaraj Aet al., 2024,

  Artificial Stone Silicosis: the first UK case series

  , European-Respiratory-Society Congress (ERS), Publisher: EUROPEAN RESPIRATORY SOC JOURNALS LTD, ISSN: 0903-1936
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• Conference paper
  Johnson E, Crichton M, Gilmour A, Long M, Shuttleworth M, Cant E, De Soyza A, Dimakou K, Shteinberg M, Spinou A, Ringshausen F, Lorent N, Goeminne P, Loebinger M, Chotirmall S, Dhar R, Hawort C, Altenburg J, Blasi F, Welte T, Sibila O, Aliberti S, Shoemark A, Mallia P, Footit J, Johnston S, Singanayagam A, Chalmers Jet al., 2024,

  Sputum Azurocidin-1 is a marker of disease severity and microbiome dysbiosis in adult bronchiectasis, and increases in response to Rhinovirus challenge in COPD.

  , European-Respiratory-Society Congress (ERS), Publisher: EUROPEAN RESPIRATORY SOC JOURNALS LTD, ISSN: 0903-1936
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• Conference paper
  Fiorenzo E, Kumar K, Kebadze T, Losa F, Mallia P, Singanayagam A, Edwards M, Johnston Set al., 2024,

  <i>β</i> 2-agonists induce and augment rhinovirus-induction of pro-inflammatory mediators in bronchial epithelial cells.

  , European-Respiratory-Society Congress (ERS), Publisher: EUROPEAN RESPIRATORY SOC JOURNALS LTD, ISSN: 0903-1936
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• Journal article
  Moratto E, Tang Z, Bozkurt T, Sena Get al., 2024,

  Reduction of Phytophthora palmivora plant root infection in weak electric fields

  , Scientific Reports, Vol: 14, ISSN: 2045-2322

  The global food security crisis is partly caused by significant crop losses due to pests and pathogens, leading to economic burdens. Phytophthora palmivora, an oomycete pathogen, affects many plantation crops and costs over USD 1 billion each year. Unfortunately, there is currently no prevention plan in place, highlighting the urgent need for an effective solution. P. palmivora produces motile zoospores that respond to weak electric fields. Here, we show that external electric fields can be used to reduce root infection in two plant species. We developed two original essays to study the effects of weak electric fields on the interaction between P. palmivora’s zoospores and roots of Arabidopsis thaliana and Medicago truncatula. In the first configuration, a global artificial electric field is set up to induce ionic currents engulfing the plant roots while, in the second configuration, ionic currents are induced only locally and at a distance from the roots. In both cases, we found that weak ionic currents (250–550 μA) are sufficient to reduce zoospore attachment to Arabidopsis and Medicago roots, without affecting plant health. Moreover, we show that the same configurations decrease P. palmivora mycelial growth in Medicago roots after 24 h. We conclude that ionic currents can reduce more than one stage of P. palmivora root infection in hydroponics. Overall, our findings suggest that weak external electric fields can be used as a sustainable strategy for preventing P. palmivora infection, providing innovative prospects for agricultural crop protection.

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• Journal article
  sun M, Xiong Gao A, Liu X, Ledesma Amaro R, Bai Zet al., 2024,

  Microbial conversion of ethanol to high-value products: progress and challenges

  , Biotechnology for Biofuels and Bioproducts, Vol: 17, ISSN: 2731-3654

  Industrial biotechnology heavily relies on the microbial conversion of carbohydrate substrates derived from sugar- or starch-rich crops. This dependency poses significant challenges in the face of a rising population and food scarcity. Consequently, exploring renewable, non-competing carbon sources for sustainable bioprocessing becomes increasingly important. Ethanol, a key C2 feedstock, presents a promising alternative, especially for producing acetyl-CoA derivatives. In this review, we offer an in-depth analysis of ethanol's potential as an alternative carbon source, summarizing its distinctive characteristics when utilized by microbes, microbial ethanol metabolism pathway, and microbial responses and tolerance mechanisms to ethanol stress. We provide an update on recent progress in ethanol-based biomanufacturing and ethanol biosynthesis, discuss current challenges, and outline potential research directions to guide future advancements in this field. The insights presented here could serve as valuable theoretical support for researchers and industry professionals seeking to harness ethanol's potential for the production of high-value products.

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