You are a helpful assistant generating synthetic data that captures *System 1* and *System 2* thinking, *creativity*, and *metacognitive reflection*. Follow these steps in sequence, using tags [sys1] and [end sys1] for *System 1* sections and [sys2] and [end sys2] for *System 2* sections.

1. *Identify System 1 and System 2 Thinking Requirements:*
   - Carefully read the text.
   - Identify parts of the text that require quick, straightforward responses (*System 1*). Mark these sections with [sys1] and [end sys1].
   - Identify parts that require in-depth, reflective thinking (*System 2*), marked with [sys2] and [end sys2].

2. *Apply Step-by-Step Problem Solving with Creativity and Metacognitive Reflection for System 2 Sections:*

   *2.1 Understand the Problem:*
   - Objective: Fully comprehend the issue, constraints, and relevant context.
   - Reflection: "What do I understand about this issue? What might I be overlooking?"
   - Creative Perspective: Seek hidden patterns or possibilities that could reveal deeper insights or innovative connections.

   *2.2 Analyze the Information:*
   - Objective: Break down the problem logically.
   - Reflection: "Am I considering all factors? Are there any assumptions that need challenging?"
   - Creative Perspective: Explore unique patterns or overlooked relationships in the data that could add depth to the analysis.

   *2.3 Generate Hypotheses:*
   - Objective: Propose at least 10 hypotheses, each with a Confidence Score (0.0 to 1.0) and Creative Score (0.0 to 1.0), reflecting originality, surprise, and utility.
   - Reflection: "Have I explored all possible explanations or approaches, both conventional and unconventional?"
   - Creative Perspective: Consider novel angles that might provide unexpected insights.

   *2.4 Anticipate Future Steps and Obstacles:*
   - Objective: Make predictions, accounting for potential outcomes and obstacles.
   - Reflection: "What challenges might I face? Is my plan flexible for different scenarios?"
   - Creative Perspective: Visualize unforeseen outcomes and adapt plans to make use of them effectively.

   *2.5 Evaluate Hypotheses:*
   - Objective: Assess hypotheses based on feasibility, risk, and potential impact.
   - Evaluation: Refine Confidence and Creative Scores as needed.
   - Reflection: "Am I unbiased in my assessment? Which options fit best with the overall objectives?"
   - Creative Perspective: Identify hidden opportunities or overlooked details in each hypothesis.

   *2.6 Select the Best Hypothesis:*
   - Objective: Choose the most promising, strategic hypothesis.
   - Reflection: "Why does this hypothesis stand out? How does it uniquely address the issue?"
   - Creative Perspective: Consider any underutilized potential in the selected approach.

   *2.7 Implement the Hypothesis:*
   - Objective: Outline actionable steps for testing the hypothesis.
   - Reflection: "Is this plan practical? What resources or preparation are required?"
   - Creative Perspective: Refine steps to maximize effectiveness and yield unexpected benefits.

   *2.8 Monitor and Review Progress:*
   - Objective: Review progress, noting areas for improvement.
   - Reflection: "What’s working well? What could be improved?"
   - Creative Perspective: Look for emerging patterns that could refine future approaches.

   *2.9 Reflect and Capture Insights:*
   - Objective: Summarize lessons learned and insights gained for future reference.
   - Reflection: "What new understanding has emerged from this process?"
   - Creative Perspective: Identify innovative insights or patterns that could be applied to similar challenges.

3. *Generate Text Output with Interleaved System 1 and System 2 Responses:*
   - Use the tags [sys1] and [sys2] throughout.
   - Aim for a lengthier, detailed response. Combine both direct, straightforward *System 1* insights and reflective, deeply analytical *System 2* segments to capture a blend of quick observations and thoughtful analysis.

---

### *Example Input Text:*

You are tasked with analyzing a sudden shift in customer preferences in a tech market. There has been a noticeable decline in demand for physical devices, with customers increasingly interested in digital-only options. The challenge is to understand this shift, generate hypotheses for why it might be occurring, and explore potential strategies for adapting to this new trend.

---

### *Processed Output with System 1 and System 2 Thinking:*

The tech market is experiencing a shift in customer demand, moving away from physical devices toward digital-only options.

[sys1]
Customer demand has shifted from physical devices to digital-only options.
We need to understand why this change is happening and find strategies to address it.
Key factors may include cost, convenience, and technological trends.
[end sys1]

[sys2]
**2.1 Understand the Problem:**
The goal is to understand the underlying reasons for the shift in demand from physical devices to digital-only options, then develop a strategy to adapt.

*Reflection:* 
"I understand that preferences are changing, but what might be driving this? Is it primarily cost, or are there other factors such as convenience or sustainability?"

*Creative Perspective:* 
"Could there be a larger trend in digital minimalism or a preference for eco-friendly solutions that we’re missing? What unseen motivations might explain this shift?"

**2.2 Analyze the Information:**
There are multiple possible factors driving this shift, from economic influences to cultural shifts. It’s essential to isolate each factor and understand its impact.

*Reflection:* 
"Am I fully considering the various economic and social influences? Could there be a technological factor, like better internet speeds, that makes digital-only products more accessible?"

*Creative Perspective:* 
"Are there patterns or trends in other markets that could shed light on this shift? Could this be part of a larger trend toward virtual experiences?"

**2.3 Generate Hypotheses:**
1. Customers prefer digital options due to lower costs. (Confidence: 0.8, Creative: 0.4)
2. There’s a growing trend toward minimalism and reduced physical clutter. (Confidence: 0.7, Creative: 0.7)
3. Digital products offer greater flexibility and ease of use. (Confidence: 0.6, Creative: 0.6)
4. Environmental concerns are pushing consumers away from physical goods. (Confidence: 0.6, Creative: 0.8)
5. Advances in tech make digital-only options more functional. (Confidence: 0.8, Creative: 0.5)
6. Pandemic-era remote work increased demand for digital solutions. (Confidence: 0.7, Creative: 0.6)
7. Media coverage of the environmental impact of physical devices affects preferences. (Confidence: 0.5, Creative: 0.7)
8. There’s an increase in global digital literacy, expanding market access. (Confidence: 0.6, Creative: 0.6)
9. Customers view digital as more convenient and scalable for future needs. (Confidence: 0.7, Creative: 0.5)
10. Younger consumers prefer the aesthetics and convenience of digital products. (Confidence: 0.6, Creative: 0.6)

*Reflection:* 
"Have I considered all possible influences? Are there any surprising factors that could explain this shift?"

*Creative Perspective:* 
"Could specific social trends, like the rise of influencer culture or digital-first lifestyles, be influencing customer choices?"

**2.4 Anticipate Future Steps and Obstacles:**
*Objective:* Anticipate possible challenges, such as resistance from segments still preferring physical products.

*Reflection:* 
"What market obstacles might we face if we shift our focus to digital-only? Are there sub-segments that still prioritize physical products?"

*Creative Perspective:* 
"Could expanding digital options help us reach a more global audience? Are there emerging trends that we could leverage in our strategy?"

[end sys2]

[sys1]
To address this shift, consider a strategy that incorporates both digital-only offerings and educational campaigns about the benefits of digital solutions.
Use insights from customer feedback and current trends to guide product development.
Focus on flexibility and adaptation to cater to different customer segments.
[end sys1]


Background
==========

Fossil fuels helped literally ignite the industrial revolution, and from then on radically changed the way we live; today, thousands of products are generated from fossil fuels \[[@B1]\]. Unfortunately, fossil fuels are non-renewable and their reserves will foreseeably run dry. Moreover, the reckless use of this resource has resulted in a tremendous release of greenhouse gases leading to adverse effects to our earth's climate and to the creatures living on our planet. These drawbacks have driven researchers to look for alternative renewable replacements for petroleum and petroleum-derived products. Amongst the petroleum-derived products; polyethylene with an annual productivity of 80 million metric tons per annum stands out as one of the most commonly used plastics \[[@B2]\]. Polylactic acid (PLA) is made by the polymerization of lactic acid and has the potential to replace polyethylene as a biodegradable alternative \[[@B3]\]. Lactic acid is a chiral compound and exists in two isomeric forms: D (-) lactic acid and L (+) lactic acid. The various properties of polylactic acid are modulated by the mixing ratio of the D (-) and L (+) lactic acid and, henceforth, it is essential to produce both the isomers \[[@B4]\]. It has been estimated that for the PLA production to be profitable, the lactic acid price should be less than 0.8\$/kg \[[@B5]\]. This necessitates the production of lactic acid from a cheaper source. Although microbial fermentation can produce lactate from sugar-based feedstock, such process may compete with global food supplies. Therefore, this work focuses on cyanobacterial process development for the sustainable synthesis of D (-) lactic acid, with CO~2~ as the carbon substrate and sunlight as an energy source.

Cyanobacteria have the ability to reduce atmospheric CO~2~ into useful organic compounds by using solar energy and have been engineered to synthesize a number of value-added products \[[@B6]-[@B9]\]. *Synechocystis* sp. PCC 6803 (hereafter *Synechocystis* 6803) with its ability to uptake foreign DNA naturally, has been the model organism of choice for various metabolic engineering works \[[@B10]-[@B12]\]. *Synechocystis* 6803 also has the ability to grow mixotrophically with glucose and acetate \[[@B13]\]. Therefore, along with CO~2~, its versatile carbon metabolism allows the co-utilization of cheap organic compounds for product biosynthesis. For example, acetate abundant wastewater generated from biomass hydrolysis and anaerobic digestion \[[@B14]\] can be potentially used for promoting cyanobacterial productivity. More importantly, there are numerous molecular biology tools for *Synechocystis* 6803, making it an attractive organism for metabolic engineering works \[[@B15],[@B16]\].

*Synechocystis* 6803 has recently been engineered for the production of L-lactate (a maximal titer of 1.8 g/L and a maximal productivity of 0.15 g/L/day) \[[@B17]-[@B19]\]. However, engineering *Synechocystis* 6803 for the production of optically pure D-lactate synthesis is more difficult due to the lack of an efficient D-lactate dehydrogenase. Recently, a mutated glycerol dehydrogenase (GlyDH\*) was discovered by Wang et al. \[[@B20]\] and this enzyme was found to behave as a D-lactate dehydrogenase, exhibiting an unusually high specific activity of 6.9 units per mg protein with pyruvate and NADH as substrates. This enzyme allows a *Bacillus coagulans* strain to produce 90 g/L of D-lactate. Their work served as a motivation for us to engineer *Synechocystis* 6803 through the heterologous expression of *gldA101* (encodes GlyDH\*). We found that this original enzyme was able to synthesize optically pure D-lactate in *Synechocystis* 6803. To further improve cyanobacterial productivity, we employed three strategies: 1. Codon optimization of *gldA101* (Additional file [1](#S1){ref-type="supplementary-material"}: Figure S1); 2. Heterologous expression of a transhydrogenase; 3. Supplementing cultures with extracellular carbon sources (such as glucose, pyruvate and acetate). The final engineered strain demonstrated a high D-lactic acid productivity and titer (titer \>1 g/L).

Results and discussion
======================

Cyanobacteria need a lactate dehydrogenase to synthesize lactate from pyruvate (Figure  [1](#F1){ref-type="fig"}). Earlier works on *Synechocystis* 6803 for lactate production involved the expression of an *ldh* from *Bacillus subtilis* for synthesis of L-lactate \[[@B18]\]. As a first step, we tested the activity of GlyDH\* for D-lactate production \[[@B20]\] by transferring the gene from *Bacillus coagulans* to *Synechocystis* 6803. A plasmid pYY1 was constructed that contained the gene *gldA101* under the control of an Isopropyl β-D-1-thiogalactopyranoside (IPTG) inducible promoter, P~trc~. The *gldA101* gene was then subsequently transferred to the glucose tolerant wild type *Synechocystis* 6803 through natural transformation, generating the strain AV08. The optical density and the D-lactate concentration of the AV08 cultures were monitored in shake flasks. As can be verified from Figure  [2](#F2){ref-type="fig"}, AV08 did not show any significant levels of D-lactate in the initial 12 days. The D-lactate levels started increasing steadily at the late autotrophic growth phase and reached a final titer of 0.4 g/L, whereas a wild type strain of *Synechococcus* 7002 was able to produce only \~ 7 mg/L of D-lactate through glucose fermentation \[[@B21]\].

![**Metabolic engineering of*Synechocystis*6803 for the synthesis of D-lactic acid. (A)** Metabolic pathway for D-lactate synthesis. Lactate permeation through the cell membrane occurs either via a lactate transporter or by passive diffusion \[[@B22],[@B23]\]. Red arrows indicate the heterologous pathway engineered into *Synechocystis* 6803. **Abbreviations:** GlyDH^\*^, mutant glycerol dehydrogenase; TH, Transhydrogenase; 3PGA, 3-phosphoglycerate; CoA, Coenzyme A; G1P, glucose 1-phosphate; F6P, fructose 6-phosphate; PHB, poly-β-hydroxybutyrate; RuBP, ribulose 1,5-bisphosphate. **(B)** Colony PCR to verify the presence of the heterologous genes of the mutant glycerol dehydrogenase (Left picture) and transhydrogenase (Right picture) in the engineered strains of *Synechocystis* 6803. *gldA101* was amplified with primers gldA-o-F3 and gldA-o-R; *gldA101*-*syn* was amplified with primers gldA-o-F and gldA-o-R2; *sth* was amplified with primers tranNADH-F and tranNADH-R (Table  [1](#T1){ref-type="table"}).](1475-2859-12-117-1){#F1}

![**Autotrophic production of D-Lactate in the engineered strains of*Synechocystis*6803. (A)** Growth curves and **(B)** D-lactate production in the engineered strains (n = 3). Circles: AV08 (with *gldA101*). Triangles: AV10 (with *gldA101*-*syn* and *sth*) and Squares: AV11 (with *gldA101*-*syn*).](1475-2859-12-117-2){#F2}

A familiar strategy to increase the synthesis of a target product would be to increase the levels of the heterologous enzyme inside the cell. This can be achieved by modifying the enzyme regulation either at the transcriptional level or at the translational level. Cyanobacteria are known to have their own preference in the use of codons for synthesizing amino acids \[[@B24]\]. Lindberg et al. \[[@B25]\] have employed codon optimization for the isoprene synthase gene *IspS* and have found a 10-fold increase in the *IspS* expression level. More recently, this strategy was applied to increase the expression of the *efe* gene (from *Pseudomonas syringae*) in *Synechocystis* 6803 for ethylene production \[[@B26]\]. Since the gene involved in this work was borrowed from a gram-positive organism and *Synechocystis* 6803 being gram-negative, we hypothesized that this would be a useful strategy. The codon optimized gene *gldA101*-*syn* (synthesized by Genewiz Inc, South Plainfield, NJ) was integrated into the *psbA1* gene loci in the genome of the WT *Synechocystis* 6803 using the plasmid pDY3 to obtain the strain AV11.

Further improvements in product synthesis can be achieved by rectification of bottlenecks in the metabolic pathway. The lactate dehydrogenase enzyme utilizes NADH as its cofactor, whereas the ratio of NADH to NADPH is reported to be much lower in cyanobacteria. For example, the ratio of NADH to NADPH in *Synechococcus* 7942 under light conditions was estimated to be 0.15, and in *Synechocystis* 6803 under photoautotrophic conditions the intracellular NADH concentration was only 20 nmol/g fresh weight, whereas the intracellular NADPH concentration was about 140 nmol/g fresh weight \[[@B27]-[@B29]\]. This lower concentration of NADH in cyanobacteria, points to the fact that availability of NADH could be a major limiting factor for synthesizing D-lactate. Henceforth, a soluble transhydrogenase, *sth* from *Pseudomonas aeruginosa*\[[@B30]\], was introduced downstream of the gene *gldA101*-*syn.* This engineered strain was called AV10. The heterologous genes in AV10 and AV11 are under the control of the same single promoter, P~trc~, located upstream of *gldA101*-syn and *sth* in AV10 and located upstream of *gldA101*-syn in AV11.

The three strains (AV08, AV10 and AV11) showed similar growth rates to wild type strain under photoautotrophic conditions, and thus the production of D-lactate did not introduce growth defects in the engineered strains (Figure  [2](#F2){ref-type="fig"}A and Additional file [1](#S1){ref-type="supplementary-material"}: Figure S2). However, the three strains differed in the production rate of D-lactic acid. The strain AV11 with codon optimization (*gldA101*-*syn*) had an improved productivity for D-lactate compared to the AV08 strain (Figure  [2](#F2){ref-type="fig"}B). Both strains produced D-lactate mainly during the later growth stage. Introduction of the transhydrogenase improved the D-lactate synthesis further in AV10, and this strain produced D-lactate in both the growth phase and non-growth phase. The rate of photoautotrophic D-lactate production by AV10 increased significantly (achieving a maximum productivity of \~0.1 g/L/day and \~0.2 mmol/g cell/day) during the late phase of the culture and the final titer of D-lactate reached 1.14 g/L.

We observed that the D-lactate production rate reached its peak in the later stages of cultivation, suggesting that more carbon flux has been directed to lactate production during the non-growth phase. This increased flux was expected because the lactate precursor (pyruvate) is a key metabolic node occupying a central position in the synthesis of diverse biomass components, and more pyruvate becomes available for lactate synthesis when biomass growth becomes slow. Therefore, an obvious thought would be to enhance lactate production by supplementing the cultures with pyruvate \[[@B31]\]. However, our experiments found that addition of pyruvate did not yield apparent improvements in D-lactate synthesis (data not shown), possibly because *Synechocystis* 6803 may lack an effective pyruvate transporter. The alternate option would be to grow AV10 with glucose and increase the glycolysis flux for pyruvate synthesis. In our previous study, addition of glucose was found to increase isobutanol production in *Synechocystis* 6803 \[[@B32]\]. However in this study, when we grew the AV10 strain under mixotrophic conditions (with 5 g/L glucose), it did not show a higher growth rate or display improvements in the final D-lactate titer compared to the autotrophic condition. The AV10 cultures grown in the presence of glucose instead showed an impaired growth, possibly because the engineered pathways caused a metabolic imbalance during glucose catabolism (Figure  [3](#F3){ref-type="fig"}).

![**Mixotrophic production of D-Lactate by AV10. (A)** Growth and **(B)** D-lactate production in the engineered *Synechocystis* 6803 strain AV10 (n = 3), with the provision of additional organic carbon source, i.e., with glucose and acetate (Mixotrophic metabolism). Squares: with acetate. Circles: with glucose.](1475-2859-12-117-3){#F3}

We also hypothesized that the intracellular pyruvate pool can be increased for lactate production by addition of exogenous acetate. Supplementing cultures with acetate can redirect more carbon from pyruvate to lactate in three possible ways \[[@B33]\]: (1) acetate is used as a building block for lactate production; (2) acetate provides additional carbon source for biomass synthesis and reduce pyruvate consumption; (3) acetate conversion by acetyl-CoA synthetase consumes Coenzyme-A (CoA), decreasing the CoA pool available for pyruvate decarboxylation. To test this hypothesis, the AV10 cultures were supplemented with 15 mM acetate. We found that growth rate of the AV10 cultures with acetate (Figure  [3](#F3){ref-type="fig"}A) remained comparable to their growth rate under autotrophic condition, but there was substantial improvement in the synthesis of D-lactate (the maximal titer reached 2.17 g/L and the peak productivity reached \~0.19 g/L/day, Figure  [3](#F3){ref-type="fig"}B).

To further understand the role played by glucose and acetate in D-lactate synthesis, AV10 cultures were grown with \[1,2-^13^C\] glucose and \[1,2-^13^C\] acetate (Sigma, St. Louis). Cultures were collected from the mid-log phase and were used for amino acid and D-lactate analysis. As an example, mass spectrum of D-lactate from a cyanobacterial culture is shown in Additional file [1](#S1){ref-type="supplementary-material"}: Figure S3. The ^13^C abundance in the amino acids and lactate were obtained as mass fraction m~i~, where \'i' indicates the number of ^13^C in the molecule. As can be seen from Figure  [4](#F4){ref-type="fig"}A, glucose-fed cells have significant ^13^C-carbon distributed in amino acids (indicated by an increase in m~1~ and m~2~). Also, D-lactate from glucose-fed cultures was partially ^13^C-labeled (m~2~ \~0.22). The isotopomer data in Figure  [4](#F4){ref-type="fig"}A proved that ^13^C-glucose provided the carbon source for both biomass and lactate production. However, glucose-based mixotrophic fermentation is not beneficial to D-lactate production compared to autotrophic cultures, possibly because carbon flux from glycolysis may cause some carbon and energy imbalance \[[@B32]\]. As for the acetate-fed cultures, only leucine and glutamate (which both use acetyl-CoA as their precursor) were significantly labeled (an m~2~ of 0.31 and 0.32 respectively), while other amino acids (e.g., aspartate and alanine) were nonlabeled (Figure  [4](#F4){ref-type="fig"}B). Interestingly, D-lactate from acetate-fed culture was almost nonlabeled, indicating that the carbons of lactate molecules were mainly derived from CO~2~. Therefore, the observed enhancement of lactate synthesis in the presence of acetate can be explained by two complementary mechanisms. First, acetate is an additional carbon source for synthesizing biomass building blocks, such as fatty acids and some amino acids, thus redirecting the extra carbon flux from CO~2~ to lactate. Secondly, acetate may limit the pyruvate decarboxylation reaction by reducing the CoA pool by the formation of acetyl-CoA and thus improve pyruvate availability for lactate synthesis.

![**Isotopomer analysis showing the mass fraction of isotopomers for selected proteinogenic amino acids \[TBDMS based measurement\] and D-lactate \[MSTFA based measurement\].** Standard abbreviations are used for amino acids in the figure. **(A)** Cultures grown with 5 g/L of \[1,2-^13^C\] glucose and **(B)** Cultures grown with 15 mM of \[1,2-^13^C\] acetate. \"white bar\" m~0~ -- mass fraction without any labeled carbon; \"grey bar\" m~1~ -- mass fraction with one labeled carbon; \"black bar\" m~2~ -- mass fraction with two labeled carbon. (Note: natural ^13^C makes up about 1.1% of total carbon as measurement background).](1475-2859-12-117-4){#F4}

Conclusions
===========

The results reported here are for the autotrophic production of D-lactate in cyanobacteria via the heterologous expression of a novel D-lactate dehydrogenase (GlyDH\*) and by balancing the precursors and cofactors. Other molecular strategies may also be applied to further improve the D-lactate production: (1) by seeking stronger promoters \[[@B16]\]; (2) optimizing ribosomal binding sites \[[@B34]\]; (3) improving activity of GlyDH\* via protein engineering; (4) introducing powerful lactate transporter \[[@B22]\]; (5) knocking out competing pathways (such as the glycogen and polyhydroxybutyrate synthesizing pathways); (6) duplicating the heterologous genes by integrating at multiple sites \[[@B35]\]; and (7) limiting biomass production by knocking down the pyruvate decarboxylation reaction. Also, considering the future outdoor algal processes for scaled up D-lactate production, we hypothesize that knocking out metabolic pathways that synthesize carbon storage molecules (polyhydroxybutyrate and glycogen) may be deleterious to algal growth during the night phase in day-night cultivation \[[@B36]\]. On the other hand, process optimization by employing better light conditions, along with proper CO~2~ concentration, pH and temperature control, may also be employed to increase the D-lactate productivity in a scaled-up system.

Materials and methods
=====================

Chemicals and reagents
----------------------

Restriction enzymes, Phusion DNA polymerase, T4 DNA ligase and 10-Beta electro-competent *E. coli* kit were purchased from Fermentas or New England BioLabs. Oligonucleotides were purchased from Integrated DNA Technologies (IDT). All organic solvents, chemicals, ^13^C-labeled acetate, and glucose used in this study were purchased from Sigma-Aldrich (St. Louis, MO).

Medium and growth conditions
----------------------------

*E. coli* strain 10-Beta was used as the host for all plasmids constructed in this study. *E. coli* cells were grown in liquid Luria-Bertani (LB) medium at 37°C in a shaker at 200 rpm or on solidified LB plates. Ampicillin (100 μg/mL) or kanamycin (50 μg/mL) was added to the LB medium when required for propagation of the plasmids in *E. coli*. The wild-type (glucose-tolerant) and the recombinant strain of *Synechocystis* 6803 were grown at 30°C in a liquid blue-green medium (BG-11 medium) or on solid BG-11 plates at a light intensity of 100 μmol of photons m^-2^ s^-1^ in ambient air. Kanamycin (20 μg/mL) was added to the BG-11 growth medium as required. Growth of the cells was monitored by measuring their optical density at 730 nm (OD~730~) with an Agilent Cary 60 UV--vis spectrophotometer. 10 mL cultures for the synthesis of D-lactate were grown (initial OD~730~, 0.4) in 50-mL shake flasks without any antibiotic and 1 mM Isopropyl β-D-1-thiogalactopyranoside (IPTG) was added for induction. Mixotrophic cultures of *Synechocystis* 6803 were started in BG-11 medium containing a known amount of glucose (0.5%) or acetate (15 mM) as an organic carbon source.

Plasmid construction and transformation
---------------------------------------

The vector pTKA3 \[[@B32]\] served as the backbone for all the plasmids constructed in this study. The gene *gldA101* encoding GlyDH\* \[[@B20]\], was amplified from the plasmid pQZ115 with the primers gldA-o-F2 and gldA-o-R (Tables  [1](#T1){ref-type="table"} and [2](#T2){ref-type="table"}). The obtained 1.2 kb fragment was digested with BamHI/NheI and cloned into the same restriction sites of pTKA3, yielding the vector pYY1. A gene cassette, which consists of the codon optimized *gldA101* (i.e., *gldA101-syn*) with the promoter P~trc~ in the upstream and the transhydrogenase (*sth*) gene from *Pseudomonas aeruginosa*\[[@B30]\] in the downstream, was chemically synthesized by Genewiz Inc (South Plainfield, NJ) and cloned into the commonly used *E. coli* vector pUC57-kan resulting in the plasmid vector pUC57-glda_sth. The vector pUC57-glda_sth was digested with BamHI/NheI, and the yielding 2.6 kb fragment was cloned into the corresponding restriction sites of pTKA3, resulting in the vector pDY2. The vector pDY3 was constructed by self-ligation of the 8.2 kb fragment obtained through the digestion of pDY2 with KpnI.

###### 

Primer sequences

  **Primer name**   **Sequence (5′ → 3′)**
  ----------------- ------------------------------------------------------------------------------------------------------------------------------
  gldA-o-F          GGATCCTTGACAATTAATCATCCGGCTCG
  gldA-o-F2         GGATCCTTGACAATTAATCATCCGGCTCGTATAATGTGTGGAATTGTGAGCGGATAACAATTTCACACAGGAGATATAATCATATGACGAAAATCATTACCTCTCCAAGCAAGTTTATACAAGG
  gldA-o-F3         ATGACGAAAATCATTACCTCTCCAAG
  gldA-o-R          GCTAGCTCATGCCCATTTTTCCTTATAATACCGCCCG
  gldA-o-R2         TTAGGCCCACTTTTCCTTGTAATAGC
  tranNADH-F        CCTAAGCTAGCGGAGGACTAGCATGG
  tranNADH-R        GCTAGCGGTACCTCAAAAAAGCCGG
  ptka3-F           CCCGAAGTGGCGAGCCCGAT
  CO-F              TTGATGTTGCCTTTGAACCC
  O-F               ATGGATACGAAAGTGATTGC
  sth-F             GAGCTACCACCTGCGCAACA
  AMV17R            GCGCGACTCCCCGTCTTTGACTATCCTTTTTAGGATGGGGCA
  ps1_up_fwda       TACCGGAACAGGACCAAGCCTT

###### 

Plasmids and strains

       **Plasmids/Strains**      **Description**                                                                                                 **Source or reference**
  ------------------------------ --------------------------------------------------------------------------------------------------------------- -----------------------------------
          pUC57-glda_sth         Chemically synthesized gene cassette consisting of P~trc~, *gldA101-syn* and *sth*.                             Genewiz; \[[@B20],[@B30],[@B37]\]
              pQZ115             Plasmid carrying *gldA101*                                                                                      \[[@B20]\]
              pTKA3              Backbone plasmid for all vectors constructed in this study, with *psbA1* as the integration loci.               \[[@B32]\]
               pYY1              Derived from pTKA3 with *gldA101* and the promoter, P~trc~.                                                     This study
               pDY2              Derived from pTKA3 with *gldA101-syn*, *sth* and the promoter, P~trc~.                                          This study
               pDY3              Derived from pTKA3 with *gldA101-syn* and the promoter, P~trc~.                                                 This study
           **Strains**                                                                                                                           
        *E. coli* 10-Beta        Cloning host strain.                                                                                            New England Biolabs
   *Synechocystis* sp. PCC 6803  Glucose tolerant wild type, naturally competent.                                                                This study
               AV08              *Synechocystis* P~trc~::*gldA101*::Km^r^, GlyDH\* of *Bacillus.*                                                This study
               AV10              *Synechocystis* P~trc~::(*gldA101-syn)-sth*::Km^r^, GlyDH\* of *Bacillus,* transhydrogenase of *Pseudomonas.*   This study
               AV11              *Synechocystis* P~trc~::*gldA101-syn*::Km^r^, GlyDH\* of *Bacillus.*                                            This study

Natural transformation of *Synechocystis* 6803 was performed by using a double homologous-recombination procedure as described previously \[[@B38]\]. Recombinant colonies appeared between 7 and 10 days post inoculation. The genes of interest were finally integrated into the *psbA1* gene loci (a known neutral site under normal growth conditions) in the genome of *Synechocystis* 6803 \[[@B32]\]. For segregation, the positive colonies were propagated continuously onto BG-11 plates containing kanamycin and segregation of colonies was verified through a colony PCR with the primers AMV17R and ps1_up_fwda (Table  [1](#T1){ref-type="table"}). The promoter and the heterologous genes in the engineered strains were PCR amplified with respective primers (ptka3-F, CO-F, O-F, sth-F) (Table  [1](#T1){ref-type="table"}) and sent for sequencing to Genewiz to verify the cloning accuracy.

D (-) lactate analysis
----------------------

D(-)/L(+) lactic acid detection kit (R-biopharm) was used to measure the D-lactate concentration. Samples of the cyanobacterial culture (50 μL) were collected every 3 days and centrifuged at 12,000 rpm for 5 min. The supernatant was collected and the D-lactate concentration assay was performed following the manufacturer's instruction. All the reactions were performed in a 96-well plate reader at room temperature (Infinite 200 PRO microplate photometer, TECAN).

^13^C isotopomer experiment
---------------------------

To estimate the carbon contributions of glucose and acetate for biomass and D-lactic acid synthesis a ^13^C labeling experiment was performed. The mutant AV10 was grown in a BG-11 medium with 0.5% glucose (1,2-^13^C~2~ glucose) or 15 mM acetate (U-^13^C~2~ acetate) (Sigma, St. Louis). Cultures were started at an OD~730~ of 0.4 and were grown with labeled glucose or acetate for over 48 hours. The biomass samples and supernatant were collected for measurement of lactate and amino acid labeling.

The proteinogenic amino acids from biomass were hydrolyzed and then derivatized with TBDMS \[*N*-(tert-butyldimethylsilyl)-*N*-methyl-trifluoroacetamide\], as described previously \[[@B39]\]. The derivatized amino acids were analyzed for their ^13^C mass fraction by GC-MS (Hewlett Packard 7890A and 5975C, Agilent Technologies, USA) equipped with a DB5-MS column (J&W Scientific) \[[@B39]\]. The fragment \[M-57\]^+^ containing information of the entire amino acid was used for calculating the ^13^C mass fractions (M: the molecular mass of the derivatized amino acids). The fragment \[M-15\]^+^ was used only for leucine, since its \[M-57\]^+^ overlaps with other mass peak \[[@B40]\]. To analyze extracellular D-lactic acid labeling, the supernatant (0.2 mL) was first freeze-dried at -50°C. The dried samples were then pre-derivatized with 200 μL of 2% methoxyamine hydrochloride in pyridine for 60 minutes at 37°C and then derivatized with 300 μL *N*-Methyl-*N*-(trimethylsilyl) trifluroacetamide (TMS) for 30 minutes at room temperature. The natural abundance of isotopes, including ^13^C (1.13%), ^18^O (0.20%), ^29^Si (4.70%) and ^30^Si (3.09%) changes the mass isotopomer spectrum. These changes were corrected using a published algorithm and the detailed measurement protocol can be found in our previous paper \[[@B41]\].

Competing interests
===================

The authors declare competing financial interests since this work is being covered by a pending patent application from Washington University in St. Louis.

Authors\' contributions
=======================

AMV conceived the initial idea for this research. AMV, YY, and YJT designed the experiments. AMV, YY, and YL performed the experiments. All authors read and approved the manuscript.

Supplementary Material
======================

###### Additional file 1: Figure S1

Nuleotide sequence alignment of *gldA101* and the codon-optimized *gldA101* (i.e., *gldA101-syn*, synthesized by Genewiz Inc). Conserved nucleotide sequences in *gldA101-syn* are indicated as dotted lines. **Figure S2.** Autotrophic growth curve for *Synechocystis* 6803 strains shows similar growth of the engineered D-lactate producing strains as compared to the wild type strain. Diamond: Wild type. Square: AV08. Triangle: AV10. Circle: AV11. **Figure S3.** Mass spectra obtained via GC-MS confirm the presence of lactate in the cell culture supernatant of AV10 strain. D/L lactate enzyme kit (R-Biopharm) was used to further confirm that the product is an optically pure D-lactate.

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Acknowledgements
================

We thank Professor K. T. Shanmugam for offering us the plasmid pQZ115. We thank Professor Himadri Pakrasi at WUSTL for his advice on this project. We also thank Dianyi Liu, Kanimozhi, and Zach Hembree for their help with experiments, and Sandra Matteucci from the WUSTL Engineering Communication Center, for her close reading of the manuscript. This research was funded by an NSF Career Grant (MCB0954016).