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Herbert, Robin Julian and Sohrabi, Fateme
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consumer behavior, intention-behavior gap, theory of planned behavior, leisure travel, sustainable transportation, international comparison, climate change, aviation industry, perceived effectiveness, social norms, perceived value, sustainable lifestyle, environmental knowledge, environmental concern, perceived price, travel distance, Business Administration, and Företagsekonomi
- Abstract
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This master thesis analyzes the influence of psychological barriers of consumers from Germany, Sweden, and Iran for using sustainable transportation modes. Climate change has started to change the way people travel. Yet prior research has shown that consumers from all over the world lack consistency between their behavioral intention and their actual behavior. In the case of traveling, this means that a significant number of consumers intends to use sustainable transportation modes, but fails to use them in the end. The reasons for this so-called intention-behavior gap in consumers' minds have been researched successfully and frequently in the past two decades. The novelty of this present thesis is the international comparison of travelers from three different countries and the explicit focus on voluntary travel. The according research questions are: RQ 1: To what extent is there a gap between the intention and behavior of leisure travelers regarding choosing sustainable transportation vehicles? RQ 2: Which group of consumers (inclined abstainers or disinclined actors[1]) plays the bigger role in creating this gap? RQ 3: What are the determinants and barriers of using more sustainable transportation vehicles in leisure transportation? RQ 4: How is the sustainable behavior of leisure travelers in Sweden, Germany, and Iran different? To answer the research questions, an online survey in Swedish (n1 = 130), German (n2 = 128), and Persian (n3 = 127) language was carried out ( ∑ n = 385) in April 2020 with a convenience sampling method and analyzed in May 2020. The results show that there is a slightly positive intention-behavior gap in the Swedish sample and a slightly negative intention-behavior gap in the Iranian sample. In the German sample, no significant intention-behavior gap has been found. Moreover, a higher level of environmental attitude, a higher level of environmental knowledge, a higher level of perceived effectiveness (of the consumers' own actions), and a higher level of social norms increases the intention of leisure travelers in Sweden, Germany, and Iran to use sustainable vehicles for leisure traveling - both for short and for long trips. The impact of perceived value and perceived price of sustainable transportation modes, as well as the impact of consumers' sustainable lifestyle on the on the travel intention are not supported in all three countries. Additionally, distance between origin and destination has been found to moderate the impact of determinants on intention. The moderating role of distance also varies in different countries. [1] See the literature review chapter for an explanation
- Full text Direct access may be available at NDLTD
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Герберт, Р / Herbert, Robin and Платтус, Р / Plattus, Rebecca
- Охрана труда и техника безопасности на промышленных предприятиях. 2013 (3):20-23
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швейное производство, профессиональные заболевания, монотонность, неудобное положение, формальдегид, красители, аллергическая чувствительность, Garment manufacture, occupational diseases, monotony, uncomfortable position, formaldehyde, dyes, and allergenic sensitivity
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Подавляющее большинство работников швейного производства составляют женщины. Рассказано об основных группах вредных и опасных производственных факторов, влияющих на здоровье работниц швейного производства.
The majority of workers in garment manufacture are women. An article tells about basic groups of harmful and dangerous production factors infl uencing the health of female workers of garment manufacture.
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Eng, Thomas, Banerjee, Deepanwita, Lau, Andrew K, Bowden, Emily, Herbert, Robin A, Trinh, Jessica, Prahl, Jan-Philip, Deutschbauer, Adam, Tanjore, Deepti, and Mukhopadhyay, Aindrila
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Bioreactor, Metabolic engineering, Para-coumarate, Pseudomonas putida, RB-TnSeq, Biotechnology, and Industrial Biotechnology
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Pseudomonas putida KT2440 is an emerging biomanufacturing host amenable for use with renewable carbon streams including aromatics such as para-coumarate. We used a pooled transposon library disrupting nearly all (4,778) non-essential genes to characterize this microbe under common stirred-tank bioreactor parameters with quantitative fitness assays. Assessing differential fitness values by monitoring changes in mutant strain abundance identified 33 gene mutants with improved fitness across multiple stirred-tank bioreactor formats. Twenty-one deletion strains from this subset were reconstructed, including GacA, a regulator, TtgB, an ABC transporter, and PP_0063, a lipid A acyltransferase. Thirteen deletion strains with roles in varying cellular functions were evaluated for conversion of para-coumarate, to a heterologous bioproduct, indigoidine. Several mutants, such as the ΔgacA strain improved fitness in a bioreactor by 35 fold and showed an 8-fold improvement in indigoidine production (4.5 g/L, 0.29 g/g, 23% of maximum theoretical yield) from para-coumarate as the carbon source.
- Full text View record at eScholarship
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Eng, Thomas, Banerjee, Deepanwita, Lau, Andrew K, Bowden, Emily, Herbert, Robin A, Trinh, Jessica, Prahl, Jan-Philip, Deutschbauer, Adam, Tanjore, Deepti, and Mukhopadhyay, Aindrila
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Pseudomonas putida, Carbon, Bioreactors, Gene Library, High-Throughput Screening Assays, Bioreactor, Metabolic engineering, Para-coumarate, RB-TnSeq, Affordable and Clean Energy, Industrial Biotechnology, and Biotechnology
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Pseudomonas putida KT2440 is an emerging biomanufacturing host amenable for use with renewable carbon streams including aromatics such as para-coumarate. We used a pooled transposon library disrupting nearly all (4,778) non-essential genes to characterize this microbe under common stirred-tank bioreactor parameters with quantitative fitness assays. Assessing differential fitness values by monitoring changes in mutant strain abundance identified 33 gene mutants with improved fitness across multiple stirred-tank bioreactor formats. Twenty-one deletion strains from this subset were reconstructed, including GacA, a regulator, TtgB, an ABC transporter, and PP_0063, a lipid A acyltransferase. Thirteen deletion strains with roles in varying cellular functions were evaluated for conversion of para-coumarate, to a heterologous bioproduct, indigoidine. Several mutants, such as the ΔgacA strain improved fitness in a bioreactor by 35 fold and showed an 8-fold improvement in indigoidine production (4.5 g/L, 0.29 g/g, 23% of maximum theoretical yield) from para-coumarate as the carbon source.
- Full text View record at eScholarship
5. Priority effects in microbiome assembly [2022]
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Debray, Reena, Herbert, Robin A., Jaffe, Alexander L., Crits-Christoph, Alexander, Power, Mary E., and Koskella, Britt
- Nature Reviews Microbiology. 20(2):109-121
- Full text View on content provider's site
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Banerjee, Deepanwita, Eng, Thomas, Sasaki, Yusuke, Srinivasan, Aparajitha, Oka, Asun, Herbert, Robin A, Trinh, Jessica, Singan, Vasanth R, Sun, Ning, Putnam, Dan, Scown, Corinne D, Simmons, Blake, and Mukhopadhyay, Aindrila
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Corynebacterium glutamicum, RNAseq, acetoin, bioreactor, fed-batch, ionic Liquid, isopentenol, lignin hydrolysate, Biotechnology, Genetics, Human Genome, Other Biological Sciences, Biomedical Engineering, and Medical Biotechnology
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Corynebacterium glutamicum is an ideal microbial chassis for production of valuable bioproducts including amino acids and next generation biofuels. Here we resequence engineered isopentenol (IP) producing C. glutamicum BRC-JBEI 1.1.2 strain and assess differential transcriptional profiles using RNA sequencing under industrially relevant conditions including scale transition and compare the presence vs absence of an ionic liquid, cholinium lysinate ([Ch][Lys]). Analysis of the scale transition from shake flask to bioreactor with transcriptomics identified a distinct pattern of metabolic and regulatory responses needed for growth in this industrial format. These differential changes in gene expression corroborate altered accumulation of organic acids and bioproducts, including succinate, acetate, and acetoin that occur when cells are grown in the presence of 50 mM [Ch][Lys] in the stirred-tank reactor. This new genome assembly and differential expression analysis of cells grown in a stirred tank bioreactor clarify the cell response of an C. glutamicum strain engineered to produce IP.
- Full text View record at eScholarship
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Eng, Thomas, Banerjee, Deepanwita, Lau, Andrew, Bowden, Emily, Herbert, Robin, Trinh, Jessica, Prahl, Jan-Philip, Deutschbauer, Adam, Tanjore, Deepti, and Mukhopadhyay, Aindrila
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Genetics and Biotechnology
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Pseudomonas putida KT2440 is an emerging industrial microbe amenable for use with renewable carbon streams including aromatics such as para -coumarate ( p CA). We examined this microbe under common stirred-tank bioreactor parameters with quantitative fitness assays using a pooled transposon library containing nearly all (4,778) non-essential genes. Assessing differential fitness values by monitoring changes in mutant strain abundance over time identified 31 genes with improved fitness in multiple bioreactor-relevant parameters. Twenty-one genes from this subset were reconstructed, including GacA, a signaling protein, TtgB, an ABC transporter, and PP_0063, a lipid A acyltransferase. Twelve deletion strains with roles in varying cellular functions were evaluated for conversion of p CA, to a heterologous bioproduct, indigoidine. Several mutants, such as the Δ gacA strain improved both fitness in a bioreactor and showed an 8-fold improvement in indigoidine production (4.5 g/L, 0.29 g/g p CA, 23% MTY) from p CA as the carbon source.
- Full text View record at eScholarship
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Banerjee, Deepanwita, Eng, Thomas, Lau, Andrew K, Sasaki, Yusuke, Wang, Brenda, Chen, Yan, Prahl, Jan-Philip, Singan, Vasanth R, Herbert, Robin A, Liu, Yuzhong, Tanjore, Deepti, Petzold, Christopher J, Keasling, Jay D, and Mukhopadhyay, Aindrila
- Nature communications. 11(1)
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Pseudomonas putida, Carbon, Piperidones, Glucose, Culture Media, Genetic Engineering, Bioreactors, Industrial Microbiology, Biomass, Fermentation, Genome, Bacterial, Gene Knockout Techniques, Synthetic Biology, Batch Cell Culture Techniques, Genome, and Bacterial
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High titer, rate, yield (TRY), and scalability are challenging metrics to achieve due to trade-offs between carbon use for growth and production. To achieve these metrics, we take the minimal cut set (MCS) approach that predicts metabolic reactions for elimination to couple metabolite production strongly with growth. We compute MCS solution-sets for a non-native product indigoidine, a sustainable pigment, in Pseudomonas putida KT2440, an emerging industrial microbe. From the 63 solution-sets, our omics guided process identifies one experimentally feasible solution requiring 14 simultaneous reaction interventions. We implement a total of 14 genes knockdowns using multiplex-CRISPRi. MCS-based solution shifts production from stationary to exponential phase. We achieve 25.6 g/L, 0.22 g/l/h, and ~50% maximum theoretical yield (0.33 g indigoidine/g glucose). These phenotypes are maintained from batch to fed-batch mode, and across scales (100-ml shake flasks, 250-ml ambr®, and 2-L bioreactors).
- Full text View record at eScholarship
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Eng, Thomas, Sasaki, Yusuke, Herbert, Robin A, Lau, Andrew, Trinh, Jessica, Chen, Yan, Mirsiaghi, Mona, Petzold, Christopher J, and Mukhopadhyay, Aindrila
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2, 3, 5, 6-Tetra-methylpyrazine, Alkaloids, Bioreactor, Corynebacterium glutamicum, Isopentenol, and Terpene
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Corynebacterium glutamicum ATCC 13032 is an established and industrially-relevant microbial host that has been utilized for the expression of many desirable bioproducts. Tetra-methylpyrazine (TMP) is a naturally occurring alkylpyrazine with broad applications spanning fragrances to resins. We identified an engineered strain of C. glutamicum which produces 5 g/L TMP and separately, a strain which can co-produce both TMP and the biofuel compound isopentenol. Ionic liquids also stimulate TMP production in engineered strains. Using a fed batch-mode feeding strategy, ionic liquid stimulated strains produced 2.2 g/L of tetra-methylpyrazine. We show that feedback from a specific heterologous gene pathway on host physiology leads to acetoin accumulation and the production of TMP.
- Full text View record at eScholarship
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Eng, Thomas, Sasaki, Yusuke, Herbert, Robin A, Lau, Andrew, Trinh, Jessica, Chen, Yan, Mirsiaghi, Mona, Petzold, Christopher J, and Mukhopadhyay, Aindrila
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2, 3, 5, 6-Tetra-methylpyrazine, Alkaloids, Bioreactor, Corynebacterium glutamicum, Isopentenol, and Terpene
- Abstract
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Corynebacterium glutamicum ATCC 13032 is an established and industrially-relevant microbial host that has been utilized for the expression of many desirable bioproducts. Tetra-methylpyrazine (TMP) is a naturally occurring alkylpyrazine with broad applications spanning fragrances to resins. We identified an engineered strain of C. glutamicum which produces 5 g/L TMP and separately, a strain which can co-produce both TMP and the biofuel compound isopentenol. Ionic liquids also stimulate TMP production in engineered strains. Using a fed batch-mode feeding strategy, ionic liquid stimulated strains produced 2.2 g/L of tetra-methylpyrazine. We show that feedback from a specific heterologous gene pathway on host physiology leads to acetoin accumulation and the production of TMP.
- Full text View record at eScholarship
11. Use of cholinium lysinate as an herbicide [2021]
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Mortimer, Jennifer C., Herbert, Robin A., Mukhopadhyay, Aindrila, and Eng, Thomas T.
- Abstract
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The present invention provides for an herbicidal composition comprising a cholinium lysinate [Ch][Lys], and a method for controlling the growth of one or more plants, comprising applying the herbicidal composition thereof.
- Full text View record in USPTO Patent Grants
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Eng, Thomas, Banerjee, Deepanwita, Lau, Andrew K., Bowden, Emily, Herbert, Robin A., Trinh, Jessica, Prahl, Jan-Philip, Deutschbauer, Adam, Tanjore, Deepti, and Mukhopadhyay, Aindrila
- In
Metabolic Engineering July 2021 66:229-238
- Full text View on content provider's site
13. Iron Supplementation Eliminates Antagonistic Interactions Between Root-Associated Bacteria. [2020]
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Eng, Thomas, Herbert, Robin A, Martinez, Uriel, Wang, Brenda, Chen, Joseph C, Brown, James B, Deutschbauer, Adam M, Bissell, Mina J, Mortimer, Jenny C, and Mukhopadhyay, Aindrila
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Acinetobacter, Pseudomonas putida, RB-TnSeq, composition and function, iron depletion, microbe-macroorganism interaction, rhizobiota, Environmental Science and Management, Soil Sciences, and Microbiology
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The rhizosphere microbiome (rhizobiome) plays a critical role in plant health and development. However, the processes by which the constituent microbes interact to form and maintain a community are not well understood. To investigate these molecular processes, we examined pairwise interactions between 11 different microbial isolates under select nutrient-rich and nutrient-limited conditions. We observed that when grown with media supplemented with 56 mM glucose, two microbial isolates were able to inhibit the growth of six other microbes. The interaction between microbes persisted even after the antagonistic microbe was removed, upon exposure to spent media. To probe the genetic basis for these antagonistic interactions, we used a barcoded transposon library in a proxy bacterium, Pseudomonas putida, to identify genes which showed enhanced sensitivity to the antagonistic factor(s) secreted by Acinetobacter sp. 02. Iron metabolism-related gene clusters in P. putida were implicated by this systems-level analysis. The supplementation of iron prevented the antagonistic interaction in the original microbial pair, supporting the hypothesis that iron limitation drives antagonistic microbial interactions between rhizobionts. We conclude that rhizobiome community composition is influenced by competition for limiting nutrients, with implications for growth and development of the plant.
- Full text View record at eScholarship
14. Iron Supplementation Eliminates Antagonistic Interactions Between Root-Associated Bacteria. [2020]
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Eng, Thomas, Herbert, Robin A, Martinez, Uriel, Wang, Brenda, Chen, Joseph C, Brown, James B, Deutschbauer, Adam M, Bissell, Mina J, Mortimer, Jenny C, and Mukhopadhyay, Aindrila
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Acinetobacter, Pseudomonas putida, RB-TnSeq, composition and function, iron depletion, microbe-macroorganism interaction, rhizobiota, Prevention, Nutrition, Genetics, Environmental Science and Management, Soil Sciences, and Microbiology
- Abstract
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The rhizosphere microbiome (rhizobiome) plays a critical role in plant health and development. However, the processes by which the constituent microbes interact to form and maintain a community are not well understood. To investigate these molecular processes, we examined pairwise interactions between 11 different microbial isolates under select nutrient-rich and nutrient-limited conditions. We observed that when grown with media supplemented with 56 mM glucose, two microbial isolates were able to inhibit the growth of six other microbes. The interaction between microbes persisted even after the antagonistic microbe was removed, upon exposure to spent media. To probe the genetic basis for these antagonistic interactions, we used a barcoded transposon library in a proxy bacterium, Pseudomonas putida, to identify genes which showed enhanced sensitivity to the antagonistic factor(s) secreted by Acinetobacter sp. 02. Iron metabolism-related gene clusters in P. putida were implicated by this systems-level analysis. The supplementation of iron prevented the antagonistic interaction in the original microbial pair, supporting the hypothesis that iron limitation drives antagonistic microbial interactions between rhizobionts. We conclude that rhizobiome community composition is influenced by competition for limiting nutrients, with implications for growth and development of the plant.
- Full text View record at eScholarship
15. Iron Supplementation Eliminates Antagonistic Interactions Between Root Associated Bacteria [2020]
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Eng, Thomas, Herbert, Robin, Martinez, Uriel, Wang, Brenda, Chen, Joseph, Brown, Ben, Deutschbauer, Adam, Bissell, Mina, Mortimer, Jenny, and Mukhopadhyay, Aindrila
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Prevention, Genetics, and Nutrition
- Abstract
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The rhizosphere microbiome (rhizobiome) plays a critical role in plant health and development. However the processes by which the constituent microbes interact to form and maintain a community are not well understood. To investigate these molecular processes, we examined pairwise interactions between 11 different microbial isolates under selected nutrient-rich and nutrient-limited conditions. We observed that when grown with media supplemented with 56 mM glucose, 2 microbial isolates were able to inhibit the growth of 6 out of 11 other microbes tested. The interaction between microbes persisted even after the antagonistic microbe was removed, upon exposure to spent media. To probe the genetic basis for these antagonistic interactions, we used a barcoded transposon library in a proxy bacterium, Pseudomonas putida , to identify genes which showed enhanced sensitivity to the antagonistic factor(s) secreted by Acinetobacter sp. 02. Iron metabolism-related gene clusters in P. putida were implicated by this systems-level analysis. The supplementation of iron prevented the antagonistic interaction in the original microbial pair supporting the hypothesis that iron limitation drives antagonistic microbial interactions between rhizobionts. We conclude that rhizobiome community composition is influenced by competition for limiting nutrients with implications for growth and development of the plant.
- Full text View record at eScholarship
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Banerjee, Deepanwita, Eng, Thomas, Lau, Andrew, Wang, Brenda, Sasaki, Yusuke, Herbert, Robin, Chen, Yan, Liu, Yuzhong, Prahl, Jan-Philip, Singan, Vasanth, Tanjore, Deepti, Petzold, Christopher, Keasling, Jay, and Mukhopadhyay, Aindrila
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Bioengineering
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Achieving high titer rates and yields (TRY) remains a bottleneck in the production of heterologous products through microbial systems, requiring elaborate engineering and many iterations. Reliable scaling of engineered strains is also rarely addressed in the first designs of the engineered strains. Both high TRY and scale are challenging metrics to achieve due to the inherent trade-off between cellular use of carbon towards growth vs. target metabolite production. We hypothesized that being able to strongly couple product formation with growth may lead to improvements across both metrics. In this study, we use elementary mode analysis to predict metabolic reactions that could be targeted to couple the production of indigoidine, a sustainable pigment, with the growth of the chosen host, Pseudomonas putida KT2440. We then filtered the set of 16 predicted reactions using -omics data. We implemented a total of 14 gene knockdowns using a CRISPRi method optimized for P. putida and show that the resulting engineered P. putida strain could achieve high TRY. The engineered pairing of product formation with carbon use also shifted production from stationary to exponential phase and the high TRY phenotype was maintained across scale. In one design cycle, we constructed an engineered P. putida strain that demonstrates close to 50% maximum theoretical yield (0.33 g indigoidine/g glucose consumed), reaching 25.6 g/L indigoidine and a rate of 0.22g/l/h in exponential phase. These desirable phenotypes were maintained from batch to fed-batch cultivation mode, and from 100ml shake flasks to 250 mL ambr® and 2 L bioreactors.
- Full text View record at eScholarship
17. Complete Genome Sequence of Agrobacterium sp. Strain 33MFTa1.1, Isolated from Thlaspi arvense Roots. [2019]
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Langley, Sasha, Eng, Thomas, Wan, Kenneth H, Herbert, Robin A, Klein, Andrew P, Yoshikuni, Yasuo, Tringe, Susannah G, Brown, James B, Celniker, Susan E, Mortimer, Jenny C, and Mukhopadhyay, Aindrila
- Microbiology resource announcements. 8(37)
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Genetics and Human Genome
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Agrobacterium sp. strain 33MFTa1.1 was isolated for functional host-microbe interaction studies from the Thlaspi arvense root-associated microbiome. The complete genome is comprised of a circular chromosome of 2,771,937 bp, a linear chromosome of 2,068,443 bp, and a plasmid of 496,948 bp, with G+C contents of 59%, 59%, and 58%, respectively.
- Full text View record at eScholarship
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Herbert, Robin A, Eng, Thomas, Martinez, Uriel, Wang, Brenda, Langley, Sasha, Wan, Kenneth, Pidatala, Venkataramana, Hoffman, Elijah, Chen, Joseph C, Bissell, Mina J, Brown, James B, Mukhopadhyay, Aindrila, and Mortimer, Jenny C
- Environmental toxicology and chemistry. 38(9)
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Rhizobium, Arabidopsis, Sorghum, Plant Roots, Soil Pollutants, Biomass, Agriculture, Ecotoxicology, Biofuels, Ionic liquids, Microbiome, Plants, Toxicology screening, Climate Action, Affordable and Clean Energy, Chemical Sciences, Environmental Sciences, and Biological Sciences
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Advances in engineering biology have expanded the list of renewable compounds that can be produced at scale via biological routes from plant biomass. In most cases, these chemical products have not been evaluated for effects on biological systems, defined in the present study as bioactivity, that may be relevant to their manufacture. For sustainable chemical and fuel production, the industry needs to transition from fossil to renewable carbon sources, resulting in unprecedented expansion in the production and environmental distribution of chemicals used in biomanufacturing. Further, although some chemicals have been assessed for mammalian toxicity, environmental and agricultural hazards are largely unknown. We assessed 6 compounds that are representative of the emerging biofuel and bioproduct manufacturing process for their effect on model plants (Arabidopsis thaliana, Sorghum bicolor) and show that several alter plant seedling physiology at submillimolar concentrations. However, these responses change in the presence of individual bacterial species from the A. thaliana root microbiome. We identified 2 individual microbes that change the effect of chemical treatment on root architecture and a pooled microbial community with different effects relative to its constituents individually. The present study indicates that screening industrial chemicals for bioactivity on model organisms in the presence of their microbiomes is important for biologically and ecologically relevant risk analyses. Environ Toxicol Chem 2019;38:1911-1922. © 2019 The Authors. Environmental Toxicology and Chemistry published by Wiley Periodicals, Inc. on behalf of SETAC.
- Full text View record at eScholarship
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Debray, Reena, Herbert, Robin A., Jaffe, Alexander L., Crits-Christoph, Alexander, Power, Mary E., and Koskella, Britt
- Nature Reviews Microbiology. 20(2):122-122
- Full text View on content provider's site
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Eng, Thomas, Sasaki, Yusuke, Herbert, Robin A., Lau, Andrew, Trinh, Jessica, Chen, Yan, Mirsiaghi, Mona, Petzold, Christopher J., and Mukhopadhyay, Aindrila
- In
Metabolic Engineering Communications June 2020 10
- Full text View on content provider's site
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