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Today In Music History 07/19/18
Music Knowledge from Domino
On this day in 1974, The Ozark Music Festival was held over three days on the Missouri State Fairgrounds. Acts who appeared included, BTO, Blue Öyster Cult, The Eagles, America, Marshall Tucker Band, Lynyrd Skynyrd, Aerosmith and more. Crowd estimates for the festival range between 300 and 400,000 people in attendance.
On this day in 1975, Orleans release "Dance With Me." The song would hit #6 on the Hot 100.
Genesis would score their first (and only) #1 Hot 100 hit, on this day in 1986, as "Invisible Touch" topped the chart.
Let's jump to this day in 1987, Bruce Springsteen plays his first ever show behind the Iron Curtain, when he appears in East Berlin in front of 180,000 people. The show was broadcast on East German TV.
On this day in 1999, Lou Bega releases his debut album, A Little Bit of Mambo. The album would go platinum in over 10 countries, including three times platinum here.
On this day in 2014, Ed Sheeran hits No.1 with X (pronounced multiply), his second studio album. The album peaked at No.1 in fifteen countries and by the end of 2014 Spotify named X the most-streamed album in the world, racking up more than 430 million streams for the year.

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that attic window
Project info
"that attic window" is an ongoing series of available light film portraits.
these portraits are usually the first photos we take in first time sessions with my models. the attic window is a moody place where people change and give my a glimpse at their soul. always.


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About this Event
Breaking News While Note Breaking Shabbat: The Spiritual Journey of a Religious Journalist
The Annual Ruth B. Wildes Memorial Lecture presents an evening with Sivan Rahav Meir.
Television newscaster, Sivan Rahav Meir, and radio personality, Yedidya Meir, are an Israeli power couple. Sivan was included by Forbes magazine in their list of the 50 most influential women in Israel, and listed by the Jerusalem Post as one of the 50 most influential Jews in the world. Her weekly class is watched online by thousands of people around the world.
Monday December 2 ,2019 at 8:00 PM | 131 W 86th Street, 10th floor
Tickets $20. Dessert reception to follow.
For VIP Reception and Reserved Seating please contact email@example.com
Sponsored by the Wildes Family on the occasion of the yahrzeit of Ruth B. Wildes z"l in whose memory MJE is dedicated. Brought to you by MJE and World Mizrachi Shlichim Program.


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Dirndl sieht man nicht mehr nur auf dem Oktoberfest. Hochzeiten wie die von Fußballnationalspieler Philipp Lahm zeigen, dass auch vor dem Traualtar die Tracht zu einer willkommenen Abwechslung zum Standard-Brautkleid geworden ist und die Braut im schlichten bis aufwendig verzierten [...Weiterlesen...]
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Spanish composers take the spotlight
One of the consistent trends since the very beginning of composition of orchestral music has been the fascination of music from faraway lands. As far back as the Classical era, adding a touch of Turkish flavour to your music was a surefire recipe for success. Many contemporary composers hold a fascination with the rhythms and harmonies of musical cultures from all over the world. Undoubtedly, one of the most alluring musical languages throughout history comes from Spain. All sorts of composers have felt a compulsive pull towards its infectious sounds.
In fact, some of the most popular and enduring orchestral music has had Spain as its muse. And the great irony is that most of this same music that has delighted audiences for centuries has been written by non-Spanish composers. Ravel, Massenet, Verdi, Chabrier, Tchaikovsky, Rimsky-Korsakov, the list goes on. Don't get me wrong, these are incredible pieces, immortal works of art. But today I wanted to focus on the real deal. This concert focuses on Spanish music written by bona fide Spanish composers. The incredible flair of authentic Spanish music is intoxicating and rich, a worthy concert celebration.
We begin with a delightful intermezzo from Geronimo Gimenez, extracted from his greatest musical success, "The Wedding of Luis Alonso." This lyrical farce is filled with mistaken identity, love triangles and a sequence of running from the bulls. It may be a fairly conventional plot line, but the music is divine. Driving rhythms, brilliant castanet features and colourful, irresistible melodies abound. As far as I'm concerned, this is one of the great Spanish concert openers, sparkling from top to bottom.
Next we feature a piece that arguably represents "Peak Spain." Rodrigo's Concierto de Aranjuez is absolutely the most popular guitar concerto ever written, and by a wide margin. Rodrigo intended to evoke the beauty of the pristine and extravagant gardens of the Palacio Real de Aranjuez, which date back to the 16th century. In this spirit, the music looks backwards in tribute, evoking a sublime renaissance feel. This is a concerto couched in gentleness and beauty, which serves the dual purpose of both giving a wonderful sense of tranquility and peace and ensuring that the tenor of the accompaniment never overwhelms the intimacy of the guitar. Spanish music has a reputation for being incredibly colourful, and that's certainly fair, but the Rodrigo concerto also highlights the amazing lyricism and melodic beauty that also pervades the very best Spanish music. The stunning second movement of this concerto, with its time-stopping duet between guitar and English horn, contains some of the greatest melodies ever written, in my opinion.
And we finish with Manuel de Falla's balletic masterpiece Three Cornered Hat. De Falla is an absolute orchestral master, as far as I'm concerned, and the richness and power of this music is exceeded only by the sheer craft. Unusually story-driven for a ballet, this piece focuses on the adventures and misadventures of the Miller and his wife. She finds herself the romantic target of the bumbling Magistrate, a corrupt official who abuses his power to arrest the Miller. After all sorts of shenanigans, the ballet resolves with a happy ending. Along the way we encounter some unbelievably impassioned music, some of the most compelling orchestral writing of the 20th century.
After hearing these three pieces live, I'm sure you'll agree that a celebration of true Spanish orchestral music is a spectacular way to finish off our Masterworks season. For those who have been along for the whole journey, you have our most sincere thanks. I hope you've found it as illuminating as we have.
Evan Mitchell is the music director for the Kingston Symphony.


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Abstract: Come and learn as Jason Peipelman UX Architect IBM Storage, Master inventor. This demonstration will cover the current DS8000 interface with special care taken to review items that have gone into the latest R8.5, and R8.5.1 releases. To this end, we will walk through the following use cases:
• Overview of system health monitoring including new Dashboard (R8.5)
• Create initial configuration for IBM Z.
• Create initial configuration for AIX.
• Setup the DS8000 side of Safeguarded Copy (R8.5)
• Setup custom user roles (R8.5)
• View copy services configuration
• Performance analysis
Speakers: Jason Peipelman, UX Architect IBM Storage, Master Inventor
Date: Thursday, April. 18, 2019
Time: 12:00 p.m. New York, 5 p.m. London, 6 p.m. Paris, 17:00:00 GMT,
Duration: 90 minutes
Presentation link: https://www.ibm.com/developerworks/community/blogs/accelerate/resource/041819WSCAccelerateDS8880GUILiveDemoFinal.pdf
Replay Link: https://ibm.box.com/s/h4063q1e1dwpczis577bsvg49fgfwd89


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Back to Nature
(Published on TBNWeekly.com - March 22, 2007)
The Zebra Longwing butterfly
By Karen Mitchell Tremmel
Photo by Rick Tremmel
This very distinctive butterfly, Zebra Longwing Butterfly (Heliconius charitonius) rests upon lantana, but prefers to feed on the nectar of passion flowers.
Spring is just around the corner. Already Floridians are observing nest building and new birth activities. As we were working in the garden last weekend we noticed a chrysalis nearby on a Passion vine on a back fence.
This little gem, which could have easily been overlooked as a brownish dried leaf, was unusual, because it had spines. After a bit of research we realized the chrysalis was the commonly known Zebra Longwing Butterfly.
The Zebra Longwing is the official Florida State Butterfly.
This butterfly is very distinctive and makes the perfect beginner butterfly to identify with its long jet black wings that are banded with thin yellow bands.
describes the Zebra Longwing has a wide range of habitats, including hardwood hammocks, thickets, and gardens. The Zebra Longwing is found throughout the state, although it is more common in south Florida, particularly in the Everglades National Park. In 1996, Governor Chiles designated the Zebra Longwing as the official state butterfly.
The Zebra Longwing has multiple broods year-round in Florida resulting in this butterfly being quite plentiful. Its favorite and host plant is Passaflora or Passion Flower which contains toxins that gives the Zebra Longwing an unpleasant taste and makes it poisonous to predators. This butterfly conducts a very unusual mating ritual.
The male Zebra Longwing makes its rounds looking for females. Apparently the female Zebra gives off some pretty powerful pheromones just as she is emerging from her chrysalis. Several males hover around vying for her attention then eventually two remain, one on each side of the chrysalis but only one wins out. After mating he then deposits his own scented chemical upon her abdomen that repels all other males. She lays 5 to 15 eggs on the host plant Passion Flower.
At first hatching, the caterpillars appear yellow then after molting they are white, with six bands of black spots. The caterpillars of the Zebra Longwing are fierce looking with long black, branched spines protruding from their backs and sides. Caterpillars have pale greenish-yellow heads.
Gathering at dusk, Zebras roost at night in communes with other Zebra butterflies. Another interesting fact is Zebras feed on nectar and pollen. They are the only butterflies known to eat both nectar and pollen which is thought to account for this butterflys long life span of nearly six months.
For more information you will find Kissimmee Prairie Preserve State Park Butterfly Checklist at:
Karen can be reached at
Copyright © 2004-2017 Karen Mitchell Tremmel, All Rights Reserved.
All text in this site is original and copyrighted by the author, who writes for a living. Please do not reproduce in whole or part without permission, except for brief quotations covered under the "Fair Use" provision of U.S. copyright law. Thanks.


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This Graphic-Designer-Turned-Chief-Creative-Officer Gives Advice on Unorthodox Career Paths
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Eagle Rock's 'Action Research Institute' | KCET
Eagle Rock's 'Action Research Institute'
In kinship with KCET.org's Juan Devis and his Web Stories series, TTLA checks in with the Urban & Environmental Policy Institute at Occidental College.
From the Institute's website, under the 'What We Believe' section: "UEPI works to achieve a just, livable, and democratic society, with a primary focus on the Los Angeles region."
Story continues below
One of UEPI's many Centers & Projects is the Center for Food & Justice. The CFJ operates out of a storefront office on 2106 Colorado Boulevard, in Eagle Rock, not far from the corner of Colorado and Eagle Rock Boulevards. As stated on the CFJ website, the program's objectives are:
"*To improve access to fresh and healthy foods in all communities, particularly those where access is most limited.
* To facilitate environmental, health promotion, community development, social justice, and land use strategies that empower local communities and strengthen the capacity of small family farmers."
In keeping with past TTLA posts, we asked Robert Gottlieb, UEPI's director and an Oxy professor, if the Institute is a think tank?
Replied Gottlieb: "We call ourselves an 'action research institute.'"
Mark Vallianatos is the CFJ director. "A think tank's purpose," Vallianatos told TTLA," is to generate and evaluate ideas and policies with the intent of influencing decision makers/ impacting society."
Vallianatos continued: "That's a useful function but there's the risk of coming up with abstract principles. So we've always tried to be grounded in geographies and through community partnerships and actual pilot projects and implementation of ideas."
Some of those projects include: Farm to School, Farm to Hospital, and the Healthy School Food Coalition -- each as straightforwardly named as Eagle Rock itself.
Think tank or not, the CFJ and UEPI at large produce white papers and other reports. The top-right side of the CFJ website, for example, currently features a download of, "Fresh Food Distribution Models for the Greater Los Angeles Region."
From the conclusion of the "Discussion" section of that 23-page doc:
"Implementing these models will require considerable support from farmers, private industry, non-profits, community partners and many others, but the outcome can be a healthy and vibrant local food system that meets the needs of all Southern California residents -- from farmers to end consumers."
Other UEPI projects include co-organizing the recent 2009 Bike Summit. (See TTLA's related post.)
And before we close this post....
TTLA asked Gottlieb to name tanks / research orgs / policy institutions that he respects the work of. "Locally," the professor said, "LAANE and Horizon Institute."
Photo Credit: The image accompanying this post was taken by Flickr user 917press. It was used under Creative Commons license.
**Disclosures: Gottlieb and at least three other past or current UEPI staff members have participated in some way in the Public Salon Series at Farmlab, where TTLA's blogger works.
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'Bombshell' Exposes Media Mogul's Toxic Sexual Harassment Culture at Fox News on Screen at the KCET Cinema Series
After the screening, KCET Cinema Series host Pete Hammond sat down with director Jay Roach.'Bombshell' Exposes Media Mogul's Toxic Sexual Harassment Culture at Fox News on Screen at the KCET Cinema Series
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DBS Car Loan Review: Singapore's Least Expensive Car Loan?
DBS Car Loan Review: Singapore's Least Expensive Car Loan?
Good for
- Individuals seeking a loan in order to purchase a new or used vehicles
Bad for
- Individuals that are unable to apply for a loan online
- Individuals seeking financing to purchase a used car that more than 9 years old
DBS charges the lowest interest rates for car loans for new and used cars (2.28%), making it the most affordable option for Singaporeans seeking to finance their purchase of a vehicle. This rate is much cheaper than other car loans available in Singapore, and can save borrowers of hundreds of dollars over the course of a loan compared to other financing options. Futhermore, the bank is offering an even cheaper rate (1.99%) for the purchase of used vehicles through its current promotion.
|Summary of DBS Car Loans
|Cheapest Interest Rate: 2.28% for online applicants
|Maximum Loan Amount: Up to 60% or 70% of vehicle price
|Loan Tenure: 1 to 7 Years
Table of Contents
What Makes DBS's Car Loans Stand Out to Borrowers
DBS charges an interest rate of 2.28% for its car loans to individuals that apply online. This is the lowest rate offered for both new and used car loans in Singapore, making DBS the most affordable option for those that require financing in order to purchase a vehicle. It is also worth noting that DBS is currently offering an even lower rate for the purchase of used cars (1.99% p.a.) in its current promotion. For more details about these rates and the cost of borrowing from DBS, click the toggles below.
|Duration (Years)
|Flat Rate
|Monthly Payment
|Total Interest Cost
Aside from its low interest rates, the bank offers very similar terms to other lenders due to MAS regulations on car lending. For example, DBS and others offer maximum loan amounts of 60% or 70% of the car price, depending on the car's value, and a maximum loan tenure of 7 years. Still, there are a few slight drawbacks to DBS's car loans. First of all, the bank charges a higher interest rate to borrowers that do not apply online. These individuals are charged 2.78% annually. Additionally, DBS does not offer car loans for the purchase of used cars that are more than 10 years old, and it charges 2.78% for loans for used cars that are more than 9 years old. With that said, DBS's car loans are by far the cheapest in Singapore for online applicants.
Who Can Apply: Eligibility Criteria
Consider this if you require a car loan to purchase a new or used car
Applicants must be at least 21 years old in order to be eligible for DBS's car loans. Additionally, The bank requires that Singaporean Citizens and Permanent Residents have monthly incomes of at least S$2,000, while foreigners residing in Singapore must earn at least S$4,000. DBS offers loans as small as S$10,000 and as large as 60% or 70% depending on the vehicle's price.
Maximum Loan Principal
|Vehicle's Open Market Value
|Maximum Loan
|S$20,000 or less
|70% of the purchase price or valuation price, whichever is lower
|Greater than S$20,000
|60% of the purchase price or valuation price, whichever is lower
Other Charges and Fees
DBS does not list any fees associated with its car loan products online. However, other car lenders in Singapore typically charge fees for late payments and for completely repaying a loan before the end of its tenure. It is important to understand the fees of each car loan before applying, as these fees can impact the total cost of owning your car.
How to Apply: Application Process
Individuals interested in DBS's car loans must apply online in order to be eligible for DBS's lowest interest rates. Applicants are required to provide documents proving their employment and income, as well as documents that detail their other financial commitments. Finally, applicants must submit their Vehicle Sales Agreement, if applicable.
Examples of Proof of Income Documents:
- Computerised Payslip
- CPF Contribution History
- IRAS Notice of Assessment


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MicroRNA 122 (miR-122) is highly expressed in the liver where it influences diverse biological processes and pathways, including hepatitis C virus replication and metabolism of iron and cholesterol. It is processed from a long non-coding primary transcript (~7.5 kb) and the gene has two evolutionarily-conserved regions containing the pri-mir-122 promoter and pre-mir-122 hairpin region. Several groups reported that the widely-used hepatocytic cell line HepG2 had deficient expression of miR-122, previously ascribed to deletion of the pre-mir-122 stem-loop region. We aimed to characterise this deletion by direct sequencing of 6078 bp containing the pri-mir-122 promoter and pre-mir-122 stem-loop region in HepG2 and Huh-7, a control hepatocytic cell line reported to express miR-122, supported by sequence analysis of cloned genomic DNA. In contrast to previous findings, the entire sequence was present in both cell lines. Ten SNPs were heterozygous in HepG2 indicating that DNA was present in two copies. Three validation isolates of HepG2 were sequenced, showing identical genotype to the original in two, whereas the third was different. Investigation of promoter chromatin status by FAIRE showed that Huh-7 cells had 6.2 ± 0.19- and 2.7 ± 0.01- fold more accessible chromatin at the proximal (HNF4α-binding) and distal DR1 transcription factor sites, compared to HepG2 cells (p=0.03 and 0.001, respectively). This was substantiated by ENCODE genome annotations, which showed a DNAse I hypersensitive site in the pri-mir-122 promoter in Huh-7 that was absent in HepG2 cells. While the origin of the reported deletion is unclear, cell lines should be obtained from a reputable source and used at low passage number to avoid discrepant results. Deficiency of miR-122 expression in HepG2 cells may be related to a relative deficiency of accessible promoter chromatin in HepG2 versus Huh-7 cells.
Citation: Hamad IAY, Fei Y, Kalea AZ, Yin D, Smith AJP, Palmen J, et al. (2015) Demonstration of the Presence of the "Deleted" MIR122 Gene in HepG2 Cells. PLoS ONE 10(3): e0122471. https://doi.org/10.1371/journal.pone.0122471
Academic Editor: Sebastien Pfeffer, French National Center for Scientific Research - Institut de biologie moléculaire et cellulaire, FRANCE
Received: August 14, 2014; Accepted: February 13, 2015; Published: March 26, 2015
Copyright: © 2015 Hamad et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Data Availability: All relevant data are within the paper and its Supporting Information files.
Funding: This study was supported by: a channel scheme studentship from the Egyptian Cultural and Educational Bureau (IAYH, APW), http://www.mohe-casm.edu.eg/; A National Institute for Health Research University College London Hospitals Biomedical Research Centre #HZHD (AZK), (http://www.uclhospitals.brc.nihr.ac.uk/); A BHF Intermediate Basic Science Research Fellowship FS/13/6/29977 (AJPS) and a BHF Programme Grant PG 008/08 (SEH, PJT), (www.bhf.org.uk). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: The authors have declared that no competing interests exist.
MicroRNA 122 (miR-122, encoded by EntrezGene ID 406906; OMIM *609582) is predominantly expressed in the liver [1]. MicroRNAs generally act by binding to partially complementary sequences in the 3' untranslated region (UTR) of target mRNAs, resulting in either mRNA degradation or block of translation. However miR-122 may also act via a different mechanism, as it also binds to the 5' UTR of the RNA genome of the hepatitis C virus (HCV), promoting viral replication [2]. MiR-122 participates in regulation of post-transcriptional gene expression in diverse physiological and pathological processes. These include support of the HCV viral cycle in hepatocytes, cell growth, apoptosis, carcinogenesis and regulation of hepatic iron and cholesterol metabolism [1–7]. Thus, antagonism of miR-122 decreased total plasma cholesterol levels whereas miR-122—mimics were shown to target the HFE and HFE2 (HJV) genes, influencing hepcidin levels and thereby body iron absorption, in both animal models and man. A phase 2 clinical trial of miR-122 inhibition using the locked nucleic acid miR-122 inhibitor miravirsen for treatment of chronic HCV genotype 1 infection reported dose-dependent reductions in the level of HCV RNA. Serum total cholesterol levels were also decreased by ~25% over the 12 week period after miravirsen treatment [4–7]. Hence miR-122 may also be considered as a potential therapeutic target in non-alcoholic fatty liver disease, the metabolic syndrome and cardiovascular disease.
Reduced expression of miR-122 in hepatocellular carcinoma versus control liver tissue and implication of many of its target mRNAs in carcinogenesis suggested that miR-122 acts as a tumour suppressor in hepatocytes [8–10]. However, studies of the expression pattern of miR-122 in two models of human liver cancer reported that miR-122 is expressed in the Huh-7 cell line but deficient in HepG2 [3,9–13]. The potential basis of this difference in expression was investigated by cloning and sequencing the pre-mir-122 stem-loop genomic region, along with two sequences proposed at that time as putative promoter regions, from HepG2 and Huh-7 cells. The pre-mir-122 stem-loop region, but not the two upstream regions, was reported to be deleted only in HepG2 cells and this was suggested to be the cause of deficient miR-122 expression in these cells [9]. However, the results of the cloning experiment appeared inconclusive and the pri-mir-122 promoter was not investigated [9,14]. We therefore aimed to clarify the nature of any deletion of the MIR122 gene in the genomic DNA of the widely-used HepG2 hepatocytic model cell line.
Materials and Methods
HepG2 cells were obtained directly from European Collection of Cell Cultures (ECACC, Public Health England, Porton Down, England; catalogue no. 85011430, passage +101, vial date 12/04/11), where the identity of the cell line had been validated by short tandem repeat DNA profile and karyotype analyses. After 6 weeks storage in liquid nitrogen, the culture was established and after a single passage, the cell pellet was harvested for DNA preparation (HepG2-1). Validation isolate HepG2-2, from Dr Clare Selden, UCL (Royal Free Hospital Campus), UK was validated as HepG2 by analysis of both microsatellite genotypes and "DNA barcodes"; tested mycoplasma-free in three different assays; tested free of selected human pathogens and was shown to be sterile by direct inoculation analysis [15]. HepG2-3, from Professor Ann K. Daly, Newcastle University Medical School, UK, was originally obtained from ATCC. Details of the third laboratory isolate, HepG2-4, are available upon request. Control Huh-7 D12 cells (referred to as Huh-7; catalogue no. 01042712, passage 19) were obtained directly from the European Collection of Cell Cultures (Public Health England, Porton Down, England) [16,17]. HepG2 cells were cultured in Eagle's minimal essential medium with 10% foetal bovine serum (FBS) and 1% non-essential amino acids (Thermo Scientific SH3023801) and Huh-7 cells in Dulbecco's Modified Eagle Medium with 10% FBS and 2 mM glutamine under 5% CO2 at 37°C. Cultures were passaged at 70–80% confluence and seeded at 2–3 ×106 cells per 75 cm2 flask.
Genomic DNA was extracted using the Nucleospin Blood QuickPure kit (Macherey-Nagel, Germany). Primers were designed using Primer3 (v. 0.4.0) [18,19] to amplify a 6078 bp region spanning the pri-mir-122 promoter and pre-mir-122 stem-loop region in 13 overlapping fragments for direct sequencing (Source Bioscience, Nottingham, UK; S1 Table) [9,14]. The sequence across a heterozygous, frame-shifting length polymorphism of a poly(T) tract was investigated by amplification of the miR122_735F / miR122_735R fragment, initially using Taq PCR Master Mix Kit (QIAGEN, UK). Fragments were cloned into pGEM-T Easy Vector System (Promega, UK) and transformed into E. coli XL-10 Gold (Stratagene / Agilent Technologies, UK) for plasmid purification using QIAprep Spin Miniprep kit (QIAGEN, UK) and sequencing using vector SP6 and T7 RNA polymerase promoter primers. Three HepG2 and five Huh-7 clones were sequenced. The cloning was repeated using Phusion high fidelity DNA polymerase (New England Biolabs Ltd, UK) and cloning the PCR products into Zero Blunt TOPO (Life Technologies Ltd, UK), transformation into E. coli TOP10 for plasmid purification using the QIAprep Spin Miniprep kit and sequencing using vector T3 and T7 RNA polymerase promoter primers of seven HepG2 and eight Huh-7 clones. The sequences were aligned to the GRCh37/hg19 (Feb. 2009) human genome assembly using ClustalW [20]. The Encyclopedia of DNA Elements (ENCODE) annotations and the positions of common SNPs were identified using the UCSC Genome Browser and dbSNP [21–23]. The 6078 bp region spanning the pri-mir-122 promoter and pre-mir-122 region was re-sequenced for validation in three additional HepG2 isolates from different sources. All primer sequences are listed in S1 Table.
Formaldehyde-Assisted Isolation of Regulatory Elements (FAIRE) was performed as previously described [24–26]. Sonication of genomic DNA from HepG2 and Huh-7 cells was performed using a UCD300 Bioruptor Next Generation sonication system (Diagenode s.a., Belgium) with a protocol of 20 cycles (1 min sonication, 1 min cooling; sonication level: high) at 4°C, in 100–300μl volumes (1.5 ml tubes), to obtain DNA fragments of 100–1000 bp, as determined by electrophoresis on 1% agarose, 0.5% Nusieve GTG agarose (Lonza) gels prepared in 8.9 mM Tris-borate buffer, 2mM EDTA pH 8.0 (1x TBE). Quantitative real-time PCR (qRT-PCR) analysis was performed in a 384 well plate using 10 ng FAIRE or non-FAIRE control DNA as template, 1x ABI Power SYBR Green mastermix #4367659 and 0.5 μM forward and reverse primers in 10 μl reactions. Primer pairs q122DR1-1F / q122DR1-1R and q122DR1-2F / q122DR1-2R (S1 Table) were designed for the proximal and distal DR-1 sites in the pri-mir-122 promoter, respectively [14]. Primers qHPRT1e3F / qHPRT1e3R were identified from ENCODE annotations to flank a well-defined, "gold standard" control site of inaccessible chromatin in HepG2 and Huh-7 cells under basal conditions, as recommended [27]. The qRT-PCR was performed using an ABI 7900HT Real-Time PCR System and the data were collected using RQ Manager v1.2 software. Three biological replicate cell culture experiments were analysed, each with four technical replicates. The comparative Ct method (2-ΔΔCt) was used to calculate the relative level of accessible chromatin, as the proportion of that in HepG2 [28]. No template controls were run in each assay to verify absence of PCR contamination. Data are presented as mean ± SEM and significance was determined using the Students' paired, two tailed t-test.
The pre-mir-122 stem-loop region, which was previously not detected in DNA from HepG2 cells and was reported likely to be mutated or deleted, was sequenced and shown to be present in the genomic DNA of HepG2 cells. The primer (miR-122 gene (downstream)) which Wu and colleagues previously used to report a deletion mapped within an Alu repeat sequence. This primer and its pair (miR-122 gene (upstream)) also contained one and three nucleotide differences, respectively, to the GRCh37 / hg19 (Feb. 2009) human genome assembly at their 5' ends (Fig. 1) [9]. Direct sequencing of 6078 bp of genomic DNA containing the pri-mir-122 promoter and the pre-mir-122 hairpin region indicated identical sequence to chr18:56112983–56119060 of the GRCh37 / hg19 assembly, with the exception of 10 SNPs for which two different alleles were demonstrated in the original isolate HepG2-1, indicating that two copies of this genomic region were present in the genomic DNA of HepG2 cells (Fig. 1) [9,14,22]. Validation in three additional isolates of HepG2 cells showed identical genotype for the karyotyped- and "DNA barcoded"- reference isolate HepG2-2 and for HepG2-3, whereas HepG2-4 had a different genotype at all 10 SNPs (Table 1).
A schematic diagram illustrates the human MIR122 genomic locus. Li et al (2011) identified the pri-mir-122 promoter and the two DR-1 sites which were investigated by FAIRE in this study [14]. The position of the pre-mir-122 stem-loop region, previously reported to be deleted in HepG2 cells, is indicated. FAIRE showed that Huh-7 cells had 6.2 ± 0.19- and 2.7 ± 0.01- fold more accessible chromatin at the DR1-1 (proximal) and DR1-2 (distal) sites than HepG2 (p = 0.03 and 0.001), respectively. The ENCODE DNase I hypersensitivity (DNAse HS, relative units; Duke University) annotations of MIR122 are shown as density signals for Huh-7 and HepG2 [22,23]. Consistent with the FAIRE results, these annotations showed a DNase I hypersensitivity site in the pri-mir-122 promoter in Huh-7 that was not seen in HepG2. The region was sequenced in 13 reactions (overlapping horizontal bars) and shown to be present in both Huh-7 and HepG2 cell lines (HepG2 isolates 1, 2 and 3). Ten SNPs spanning the region were heterozygous indicating that DNA was present in two copies. The positions of the miR-122 gene (upstream) and miR-122 gene (downstream) primers (Table 1) previously used to report the HepG2 MIR122 "deletion" [9] are indicated by arrowheads; the downstream primer was located within an AluJb repeat sequence. The widely-reported deficiency of miR-122 expression in HepG2 cells is not caused by a MIR122 deletion, but may be related to a less accessible chromatin conformation in HepG2 than Huh-7 cells. Scale bar, 2kb.
The results from cloned single allele sequencing from the original HepG2-1 isolate confirmed that two of the upstream SNPs, rs9966765 and rs1135519, were heterozygous. In addition, analysis of the cloned sequences for a poly(T) length polymorphism located upstream of the pre-mir-122 stem-loop region (reported in dbSNP as rs143672020 and rs71173053) was consistent with the presence of two alleles for HepG2 (Fig. 2). The single allele cloned sequences obtained after amplification with Taq polymerase showed both an apparent slippage in the length of the poly(T) tract and sequence differences between clones at positions not corresponding to the positions of common SNPs (Fig. 2A). The cloning was therefore repeated after amplification using a proofreading DNA polymerase. Such changes were still observed after amplification with Phusion High Fidelity DNA Polymerase, with 3/15 (20%) of single allele clones obtained from HepG2 and Huh-7 DNA showing apparent poly(T) slippage and also four sequence variants observed that were not seen in other clones of the same haplotype (Fig. 2B). Overall, despite this sequence heterogeneity, the polymorphisms confirmed two different haplotypes in HepG2 DNA, consistent with the presence of two alleles of the pre-mir-122 stem-loop region.
(A) Cloned DNA sequences obtained after amplification with Taq polymerase. Two haplotypes (differently shaded) were observed for HepG2, consistent with the presence of two alleles across this region. However, among the eight HepG2 and Huh-7 clones, six sequence differences to the reference genome assembly were detected (*), so cloning was repeated using a proofreading DNA polymerase. (B) Cloned DNA sequences obtained after amplification with Phusion high fidelity DNA polymerase. Essentially the same two haplotypes of HepG2 were seen, but three novel single nucleotide substitution variants were detected and in a fourth clone, the rs9966765 allele did not correspond to the background haplotype observed. The reported error rate of Phusion High-Fidelity DNA Polymerase (GC Buffer) is 9.5 x 10-7 errors / base pair / PCR cycle (New England Biolabs). SNPs rs9966765 and rs1135519 are located upstream of the pre-mir-122 stem-loop region; their respective alleles are shown. The genomic positions on chromosome 18 (GRCh37/hg19 (Feb. 2009) human genome assembly) of non-SNP sequence variants and the alleles observed are shown; (T)n refers to the length (base pairs) of the polymorphic poly(T) tract. *, position showing a sequence variant not corresponding to the predominant haplotypes observed.
Chromatin accessibility in the original HepG2-1 isolate was analysed by FAIRE at the two DR-1 (potentially HNF4α-binding) transcription factor sites described in the pri-mir-122 promoter [14]. Consistent with the reported deficiency of miR-122 expression in HepG2 cells, FAIRE showed that Huh-7 cells had 6.2 ± 0.19- and 2.7 ± 0.01- fold more accessible chromatin at the proximal and distal DR-1 promoter sites, (p = 0.03 and 0.001, respectively), than did HepG2 cells. Consistent with these findings, in silico analysis also indicated some regulatory differences between the two cell lines. A DNase I hypersensitive site was present at the pri-mir-122 promoter in Huh-7 cells that was absent in the HepG2 cells, indicating a difference in potential promoter activity and suggesting an effect on miR-122 expression (Fig. 1) [14,22,23].
MiR-122 is considered a potential therapeutic target as it regulates diverse processes and pathways, including HCV replication and hepatic iron and cholesterol metabolism. A clinical trial of miR-122 inhibition using miravirsen in the setting of HCV infection showed dose-dependent reduction of HCV RNA, along with a maximal reduction in serum total cholesterol concentration of ~ 0.8–1.7 mM and a sustained reduction 14 weeks after cessation of treatment of ~ 0.4–1.7 mM, depending on the dosage group [7]. The present study demonstrated that the region encompassing pri-mir-122 promoter and pre-mir-122 stem-loop was present in the HepG2 cell line, whereas deletion of the pre-mir-122 stem-loop region had been previously reported as the cause of low miR-122 expression in HepG2 cells [9,14]. This was supported by direct sequencing of PCR products and cloned DNA. Although "loss of heterozygosity" of tumour suppressor genes is a commonly observed step in tumourigenesis, there was no "loss of heterozygosity" of the MIR122 gene in HepG2 cells: two different alleles were detected at 10 SNPs spanning the 6078 bp genomic region spanning the pri-mir-122 promoter and the pre-mir-122 stem-loop region [29]. The sequence of the original isolate, obtained and used directly from ECACC, was identical to two of three additional isolates of HepG2 obtained from different laboratories, one of which had been validated as HepG2 by karyotyping and "DNA barcoding"[15]. The third isolate also showed no evidence of deletion across the 6078 bp region sequenced; however, it had a different genotype at all 10 SNPs, indicating that this cell line was probably not HepG2. This observation emphasises the importance of obtaining cell lines from a reputable source and using them at low passage number. Overall, the data confirmed the presence of the region spanning the pri-mir-122 promoter and pre-mir-122 stem-loop region in the genome of HepG2 cells. Thus, deletion is not the cause of the widely reported low basal miR-122 expression in HepG2 cells [3,9–13]. This deficient expression could therefore result from chromatin or histone features either of the MIR122 gene itself or of an enhancer or other remote regulatory sequence.
MiR-122 is predominantly expressed in the liver where it regulates several hepatic pathways and processes. The liver-enriched transcription factor HNF4α is an important regulator of miR-122 expression; in Huh-7 cells, HNF4α was previously shown to bind to the proximal conserved DR-1 site in the pri-mir-122 promoter [14]. The distal DR-1 site was not investigated. FAIRE was therefore used to investigate accessibility of chromatin at the two predicted DR-1 sites in the pri-mir-122 promoter. By FAIRE, Huh-7 cells had 6.2 ± 0.19- and 2.7 ± 0.01- fold more accessible chromatin at the proximal and distal DR1 sites, respectively, compared to HepG2 cells (p = 0.03 and 0.001, respectively). Consistent with these findings, in silico analysis of ENCODE annotations showed a DNAse I hypersensitive site in the pri-mir-122 promoter of the Huh-7 cell line that was absent from HepG2 cells. This indicated that under the basal conditions studied, in Huh-7 cells, DNA at this site was relatively accessible for binding of transcription factors whereas in HepG2, chromatin was condensed and inaccessible. Taken together, these data indicate that chromatin at two predicted HNF4α binding sites in the HepG2 promoter (one of which was previously demonstrated to bind HNF4α) is less accessible than that in Huh-7 cells, potentially leading to transcriptional repression. This mechanism could contribute to or explain the reported difference in miR-122 expression between the two cell lines.
Sequence heterogeneity of a poly(T) tract in the MIR122 gene was detected by sequencing cloned DNA, which also supported the presence of two different alleles in HepG2 cells, although some clone haplotypes showed an apparent "slippage" in the length of the poly(T) tract and / or additional "non-SNP" single nucleotide substitutions in individual clones. The origin of this micro-heterogeneity of DNA sequence is not known, but it could have been present in the original tumour from which the HepG2 cell line was derived [16], or may have occurred during cloning or propagation of the cell line, or as a result of PCR or cloning. Similar sequence heterogeneity was observed for cloned Huh-7 DNA. The observed error rate was ~14-fold higher than that reported for Phusion High-Fidelity DNA Polymerase (GC Buffer) (New England Biolabs; Fig. 2) which, if this error rate is correct, suggests that these changes are unlikely to have arisen solely as a result of PCR errors. The spectral karyotype of HepG2 was previously reported to show widespread cytogenetic heterogeneity, with both aneuploidy and structural abnormalities of chromosomes (52–78, XY; del(1)(p22); +2; +der(6)t(6;17)(p10;q22); +14; +der(16)t(6;16)(q22;p13.3); +20 X 2; der(21)t(1;21)(p22;q10)). However, these cytogenetic changes did not involve chromosome 18, which contains the MIR122 gene[30]. Other commonly used cell lines have been found to harbour gene deletions [31,32], underlining the value of confirming cell culture studies performed with easily manipulated cell lines in additional cell lines or in more physiologically-relevant systems such as primary cell cultures.
The original error leading to incorrect reporting of deletion of the pre-mir-122 stem-loop region [9] could have arisen due to failure of PCR amplification or cloning. The downstream primer used by these authors for PCR was within an Alu repeat, a family of highly repeated sequences that are estimated to be present in over a million copies in the human genome [33]. Hence, degeneracy of one PCR primer and primer-template mismatches could have contributed along with other factors, such as template quality, to failure of amplification of the pre-mir-122 stem-loop region from HepG2 genomic DNA. Alternatively, the isolate of HepG2 cells used by these authors could possibly have undergone homozygous deletion of MIR122 if late passage number cells were used; or a failure of cloning could have led to the incorrect identification of an apparent deletion.
The HepG2 cell line has been widely used as model human hepatocytic cell line in many biological studies, with a PubMed search (HepG2; 02/03/15) showing 17,490 citations. HepG2 cells offer certain advantages over Huh-7 cells as a model system, such as the ability to polarise with tight junctions separating apical and basolateral poles, forming structures reminiscent of the bile canaliculi of intact liver. For example they have been proposed as a model in which to investigate the effects of hepatocyte polarity upon the HCV life cycle [34]. While HCV replication in the HepG2 cell line occurs at a level approximately 850 times lower than in Huh-7 cells, co-transfection of miR-122 and the HCV "receptor", CD81, into HepG2 enables these cells to support the entire viral life cycle [35]. Therefore, the demonstration that the entire MIR122 gene is present, and not deleted, is significant because it indicates the potential for induction of miR-122 expression in HepG2 cells by appropriate ligands, transcription factors and / or growth conditions.
In conclusion, contrary to the previously reported deletion, we found the entire locus spanning the pri-mir-122 promoter and pre-mir-122 stem-loop region is present in two copies in the widely used HepG2 cell line. Analysis of ENCODE DNAse I genome annotations and FAIRE investigation of HepG2 and Huh-7 cultures suggested that the reported lack of miR-122 expression in HepG2 cells may be related to repression of transcription by a relatively condensed chromatin structure within the pri-mir-122 promoter.
Supporting Information
S1 Table. Primers used for PCR, sequencing and qPCR.
Bp, base pairs; Tm, the melting temperature used for PCR; n/a, not applicable. aThese previously reported PCR primers were found to be problematic and the downstream primer mapped within an AluJb repeat sequence.
We thank Dr Clare Selden, UCL (Royal Free Hospital Campus), UK (HepG2-2) and Professor Ann K. Daly, Newcastle University Medical School, UK (HepG2-3), for kindly providing HepG2 validation isolates.
Author Contributions
Conceived and designed the experiments: IAYH APW. Performed the experiments: IAYH YF DY AJPS JP APW. Analyzed the data: IAYH YF AZK SEH PJT APW. Wrote the paper: IAYH AZK SEH AJPS JP APW.
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